Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 33 of 33
Found at i:6261892 original size:14 final size:14
Alignment explanation
Indices: 6261875--6261939 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
6261865 AAAATTAGAA
6261875 AGAAAAAAAAAAAG
1 AGAAAAAAAAAAAG
**
6261889 AGAAAAAAGAAAATT
1 AGAAAAAA-AAAAAG
*
6261904 A-AAAAAAAAAATTG
1 AGAAAAAAAAAA-AG
6261918 A-AAAGAAAAAAAAG
1 AGAAA-AAAAAAAAG
*
6261932 TGAAAAAA
1 AGAAAAAA
6261940 TTTTATTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 23 0.55
15 15 0.36
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (14 bp):
AGAAAAAAAAAAAG
Found at i:6261895 original size:33 final size:31
Alignment explanation
Indices: 6261849--6261931 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 31
6261839 ATTTTTAATG
* **
6261849 AAAAATGAAAAAAATTAAAATTAGAAAGAAAAA
1 AAAAAAGAAAAAAAAGAAAATTA-AAA-AAAAA
*
6261882 AAAAAAGAGAAAAAAGAAAATTAAAAAAAAA
1 AAAAAAGAAAAAAAAGAAAATTAAAAAAAAA
6261913 AATTGAAAAGAAAAAAAAG
1 AA---AAAAGAAAAAAAAG
6261932 TGAAAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 7 0.17
32 3 0.07
33 19 0.45
34 13 0.31
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (31 bp):
AAAAAAGAAAAAAAAGAAAATTAAAAAAAAA
Found at i:6261938 original size:17 final size:16
Alignment explanation
Indices: 6261907--6261937 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6261897 GAAAATTAAA
*
6261907 AAAAAAAATTGAAAAG
1 AAAAAAAAGTGAAAAG
6261923 AAAAAAAAGTGAAAA
1 AAAAAAAAGTGAAAA
6261938 AATTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAAAAAAGTGAAAAG
Found at i:6262783 original size:23 final size:23
Alignment explanation
Indices: 6262757--6262802 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6262747 TGATAAGGCG
*
6262757 TGGGCACGCTCTATAGGCAAACA
1 TGGGCACGATCTATAGGCAAACA
*
6262780 TGGGCACGATTTATAGGCAAACA
1 TGGGCACGATCTATAGGCAAACA
6262803 ACTTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.20
Consensus pattern (23 bp):
TGGGCACGATCTATAGGCAAACA
Found at i:6265364 original size:3 final size:3
Alignment explanation
Indices: 6265356--6265401 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
6265346 TTTCATTACC
* *
6265356 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6265402 TAAAAGACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6265411 original size:21 final size:21
Alignment explanation
Indices: 6265356--6265411 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
6265346 TTTCATTACC
* *
6265356 AATAATAATAATAATAATAAT
1 AATAATAAAAACAATAATAAT
*
6265377 AATAATAACAACAATAATAAT
1 AATAATAAAAACAATAATAAT
6265398 AAT-ATAAAAGACAA
1 AATAATAAAA-ACAA
6265412 ACTCATTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AATAATAAAAACAATAATAAT
Found at i:6265750 original size:3 final size:3
Alignment explanation
Indices: 6265742--6265789 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
6265732 ATTTTTAAAG
* * * *
6265742 ATT ATT ATT ATT ATT ATT ATT GTT GTT ATT GTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6265790 TCCTTAACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6266792 original size:21 final size:21
Alignment explanation
Indices: 6266753--6266792 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6266743 TAATGATTGG
* **
6266753 ATGAAATAATATATTTTTTGA
1 ATGAAAAAATATAACTTTTGA
6266774 ATGAAAAAATATAACTTTT
1 ATGAAAAAATATAACTTTT
6266793 AATAATCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (21 bp):
ATGAAAAAATATAACTTTTGA
Found at i:6270528 original size:2 final size:2
Alignment explanation
Indices: 6270521--6270554 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6270511 TTGATGTAGC
*
6270521 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6270555 GCTATGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6271663 original size:6 final size:6
Alignment explanation
Indices: 6271652--6271684 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6271642 TATAATCAAG
6271652 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
6271685 TCCACATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:6272128 original size:12 final size:12
Alignment explanation
Indices: 6272107--6272230 Score: 160
Period size: 12 Copynumber: 10.3 Consensus size: 12
6272097 GTCTACTTGT
6272107 TTCTCATCTTTC
1 TTCTCATCTTTC
*
6272119 TTCCCATCTTTC
1 TTCTCATCTTTC
*
6272131 TTCTCATCCTTC
1 TTCTCATCTTTC
* *
6272143 TCCCCATCTTTC
1 TTCTCATCTTTC
*
6272155 TTGTCATCTTTC
1 TTCTCATCTTTC
6272167 TT-TACATCTTTC
1 TTCT-CATCTTTC
6272179 TTCTCATCTTTC
1 TTCTCATCTTTC
* *
6272191 TTTTCAACTTTC
1 TTCTCATCTTTC
6272203 TTCTCATCTTTC
1 TTCTCATCTTTC
*
6272215 TTTTCATCTTTC
1 TTCTCATCTTTC
6272227 TTCT
1 TTCT
6272231 TGGAATCCTC
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
11 1 0.01
12 93 0.98
13 1 0.01
ACGTcount: A:0.10, C:0.33, G:0.01, T:0.56
Consensus pattern (12 bp):
TTCTCATCTTTC
Found at i:6273622 original size:14 final size:13
Alignment explanation
Indices: 6273588--6273634 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
6273578 AATTCATACA
6273588 TATATATATATATT
1 TATATA-ATATATT
6273602 TAT-TAATATGATT
1 TATATAATAT-ATT
6273615 TATATAATATATAT
1 TATATAATATAT-T
6273629 TATATA
1 TATATA
6273635 GAATTAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.13
13 10 0.33
14 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TATATAATATATT
Found at i:6274787 original size:16 final size:17
Alignment explanation
Indices: 6274766--6274799 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6274756 TGACATGAAC
6274766 ATATAA-ATTAATCGAG
1 ATATAAGATTAATCGAG
*
6274782 ATATAAGATTAATTGAG
1 ATATAAGATTAATCGAG
6274799 A
1 A
6274800 CACAACCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
ATATAAGATTAATCGAG
Found at i:6275291 original size:20 final size:20
Alignment explanation
Indices: 6275275--6275316 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
6275265 TTTCTTTTCT
6275275 TTTTCTTTTCTTCCTTTCTCC
1 TTTT-TTTTCTTCCTTTCTCC
6275296 TTTTTTTTCTTTCTCTTTCTC
1 TTTTTTTTC-TTC-CTTTCTC
6275317 GCATGCTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTTCTTCCTTTCTCC
Found at i:6275291 original size:24 final size:25
Alignment explanation
Indices: 6275256--6275312 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
6275246 CATAAAAAAA
6275256 TTTTC-TCTCTTTCT-TTTCTTTTTC
1 TTTTCTTCTCTTTCTCTTT-TTTTTC
6275280 TTTTCTTC-CTTTCTCCTTTTTTTTC
1 TTTTCTTCTCTTTCT-CTTTTTTTTC
6275305 TTTCTCTT
1 TTT-TCTT
6275313 TCTCGCATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.38
25 11 0.38
26 7 0.24
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTCTTCTCTTTCTCTTTTTTTTC
Found at i:6277726 original size:2 final size:2
Alignment explanation
Indices: 6277721--6277761 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6277711 TTTTTCGTGG
6277721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6277762 TCTGAGTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6278806 original size:20 final size:20
Alignment explanation
Indices: 6278783--6278824 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6278773 TTTTTTTATG
6278783 ATTTAATATAAAATA-TATTT
1 ATTTAATA-AAAATATTATTT
**
6278803 ATTTTTTAAAAATATTATTT
1 ATTTAATAAAAATATTATTT
6278823 AT
1 AT
6278825 AGATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAATAAAAATATTATTT
Found at i:6279376 original size:18 final size:19
Alignment explanation
Indices: 6279346--6279392 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
6279336 ATATGTTTGA
6279346 TATT-TTTTT-ATTTATTT
1 TATTATTTTTAATTTATTT
6279363 T-TTATTTTTAATTTATTT
1 TATTATTTTTAATTTATTT
*
6279381 TATTATTATTAA
1 TATTATTTTTAA
6279393 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 6 0.23
18 9 0.35
19 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTATTTTTAATTTATTT
Found at i:6279505 original size:37 final size:39
Alignment explanation
Indices: 6279450--6279533 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 39
6279440 AATTTTAAAA
*
6279450 TTAATATATAATTAAATTAAAA-ATAAATTTAA-AGT-AT
1 TTAATATATAATTAAATTAAAATAT-AATTTAATAATAAT
* * *
6279487 TTAATATGTATTTGAATTAAAATATAATTTAATAATAAT
1 TTAATATATAATTAAATTAAAATATAATTTAATAATAAT
6279526 TTAATATA
1 TTAATATA
6279534 ACAATAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 26 0.67
38 4 0.10
39 9 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (39 bp):
TTAATATATAATTAAATTAAAATATAATTTAATAATAAT
Found at i:6285550 original size:2 final size:2
Alignment explanation
Indices: 6285543--6285579 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6285533 TATCGATACT
6285543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6285580 CCCATCAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6286595 original size:16 final size:15
Alignment explanation
Indices: 6286576--6286605 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6286566 TTATATTTTA
6286576 ATTTAATTATAAAATT
1 ATTTAATTA-AAAATT
6286592 ATTTAATTAAAAAT
1 ATTTAATTAAAAAT
6286606 AACATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAATTAAAAATT
Found at i:6290495 original size:16 final size:16
Alignment explanation
Indices: 6290443--6290542 Score: 89
Period size: 16 Copynumber: 6.2 Consensus size: 16
6290433 TTTGGGTTAA
6290443 GTCATTTCGAGTTCGG
1 GTCATTTCGAGTTCGG
*
6290459 GTCACTTTAGA-TTCGG
1 GTCA-TTTCGAGTTCGG
*
6290475 GTCATTTCGAGTTTGG
1 GTCATTTCGAGTTCGG
* * *
6290491 ATCATTTC-AGGTTTGT
1 GTCATTTCGA-GTTCGG
*
6290507 GTTATTTC-AGGTTCGG
1 GTCATTTCGA-GTTCGG
*
6290523 GTCATTTCGAATTCGG
1 GTCATTTCGAGTTCGG
6290539 GTCA
1 GTCA
6290543 ATCGGGTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
15 6 0.09
16 57 0.83
17 6 0.09
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (16 bp):
GTCATTTCGAGTTCGG
Found at i:6291685 original size:16 final size:16
Alignment explanation
Indices: 6291594--6291686 Score: 82
Period size: 16 Copynumber: 5.9 Consensus size: 16
6291584 AATTATTCAG
*
6291594 GTCATTTCGGGTTTG-
1 GTCATTTCGGGTTCGA
* * *
6291609 GTTTATTTCGGATTCGG
1 G-TCATTTCGGGTTCGA
*
6291626 GTCATCTCGGGTTCGA
1 GTCATTTCGGGTTCGA
* *
6291642 GTCATCT-GGATTCGA
1 GTCATTTCGGGTTCGA
* *
6291657 ATCATTTCAGGTTCGA
1 GTCATTTCGGGTTCGA
6291673 GTCATTTCGGGTTC
1 GTCATTTCGGGTTC
6291687 AGGTCAGTTC
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
15 13 0.21
16 47 0.77
17 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.28, T:0.40
Consensus pattern (16 bp):
GTCATTTCGGGTTCGA
Found at i:6291692 original size:16 final size:15
Alignment explanation
Indices: 6291593--6291698 Score: 70
Period size: 16 Copynumber: 6.7 Consensus size: 15
6291583 TAATTATTCA
*
6291593 GGTCATTTCGGGTTT
1 GGTCATTTCGGGTTC
* *
6291608 GGTTTATTTCGGATTC
1 GG-TCATTTCGGGTTC
*
6291624 GGGTCATCTCGGGTTC
1 -GGTCATTTCGGGTTC
* *
6291640 GAGTCATCT-GGATTC
1 G-GTCATTTCGGGTTC
* *
6291655 GAATCATTTCAGGTTC
1 G-GTCATTTCGGGTTC
6291671 GAGTCATTTCGGGTTC
1 G-GTCATTTCGGGTTC
*
6291687 AGGTCAGTTCGG
1 -GGTCATTTCGG
6291699 ATTCAGTTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
15 15 0.21
16 54 0.75
17 3 0.04
ACGTcount: A:0.14, C:0.18, G:0.30, T:0.38
Consensus pattern (15 bp):
GGTCATTTCGGGTTC
Found at i:6296754 original size:26 final size:26
Alignment explanation
Indices: 6296687--6296747 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
6296677 AATGATGCAA
* * *
6296687 CTTTGCTGCTTATGTACTTATAGTAG
1 CTTTGCTACTTGTTTACTTATAGTAG
*
6296713 CTTTGCTACTTGTTTACTTGTAGTAG
1 CTTTGCTACTTGTTTACTTATAGTAG
6296739 CTTTTGCTA
1 C-TTTGCTA
6296748 TTTTTTAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.49
Consensus pattern (26 bp):
CTTTGCTACTTGTTTACTTATAGTAG
Found at i:6297996 original size:17 final size:17
Alignment explanation
Indices: 6297974--6298023 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
6297964 TTTTGCCTAA
6297974 ATGTATCGATACAAGGC
1 ATGTATCGATACAAGGC
6297991 ATGTATCGATACAAGGC
1 ATGTATCGATACAAGGC
*
6298008 ATGTATCAATACAAGG
1 ATGTATCGATACAAGG
6298024 TCTTAATGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (17 bp):
ATGTATCGATACAAGGC
Found at i:6298083 original size:20 final size:21
Alignment explanation
Indices: 6298058--6298109 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6298048 TTTTATAATT
6298058 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
6298078 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTGAAA
6298099 TGTATCGATAC
1 TGTATCGATAC
6298110 TGGACCATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:6303322 original size:15 final size:15
Alignment explanation
Indices: 6303302--6303331 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6303292 TTAATTTAAC
*
6303302 AAAAATTCATTAATA
1 AAAAATTAATTAATA
6303317 AAAAATTAATTAATA
1 AAAAATTAATTAATA
6303332 TTAATAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTAATTAATA
Found at i:6303389 original size:135 final size:139
Alignment explanation
Indices: 6303117--6303376 Score: 296
Period size: 147 Copynumber: 1.8 Consensus size: 139
6303107 ATTAGTAAGA
* **
6303117 AAATAATAAATAAAGATTAGTCAATATTTTAATTTAATAAAAAAATCATTAATAAAAGCTTAGAT
1 AAATAATAAATAAAGATTACTCAATATTTTAATTTAATAAAAAAATCATTAATAAAAAATTAGAT
* * * **
6303182 TAAAAATTAGCAAAAAATAAAACATACATATCAATTAAGAAAAGTTTATATTAATGAGGACTTCA
66 TAAAAATT------AAATAAAACATA-ATATCAATAAAGAAAAGTTTACATTAATAAAAAC-TCA
6303247 AGATTAATATAAATAAT
123 AGATTAATATAAATAAT
* *
6303264 AAATAATAAATAAAGATTACTCAATATTTTAATTTAA-CAAAAATTCATTAATAAAAAATTA-AT
1 AAATAATAAATAAAGATTACTCAATATTTTAATTTAATAAAAAAATCATTAATAAAAAATTAGAT
* * *
6303327 T-AATATT-AATAAAAGAT-ATATGAATAAAGAAAAGTTTACATTAATAAAAA
66 TAAAAATTAAATAAAACATAATATCAATAAAGAAAAGTTTACATTAATAAAAA
6303377 ACCATAGGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
135 27 0.27
137 9 0.09
144 5 0.05
145 3 0.03
146 20 0.20
147 36 0.36
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (139 bp):
AAATAATAAATAAAGATTACTCAATATTTTAATTTAATAAAAAAATCATTAATAAAAAATTAGAT
TAAAAATTAAATAAAACATAATATCAATAAAGAAAAGTTTACATTAATAAAAACTCAAGATTAAT
ATAAATAAT
Found at i:6303821 original size:19 final size:20
Alignment explanation
Indices: 6303785--6303827 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6303775 TATAATTAAA
6303785 TTTAAATAAAAATATATTAT
1 TTTAAATAAAAATATATTAT
* *
6303805 TTTAATTAAAAAT-TATTGT
1 TTTAAATAAAAATATATTAT
6303824 TTTA
1 TTTA
6303828 GGTTTGGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAAATAAAAATATATTAT
Found at i:6304459 original size:21 final size:20
Alignment explanation
Indices: 6304404--6304459 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
6304394 CATACAATAT
*
6304404 ATAATTTTTATTATATAAAA
1 ATAATTTATATTATATAAAA
* *
6304424 A-AATATATATCATATAAAA
1 ATAATTTATATTATATAAAA
6304443 ATAATTGTATATTATAT
1 ATAATT-TATATTATAT
6304460 TATAGTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.55
20 4 0.14
21 9 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATTTATATTATATAAAA
Found at i:6304608 original size:3 final size:3
Alignment explanation
Indices: 6304600--6304630 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6304590 ATAGGGTTTT
6304600 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6304631 TTTTAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6305808 original size:72 final size:72
Alignment explanation
Indices: 6305732--6305924 Score: 210
Period size: 72 Copynumber: 2.6 Consensus size: 72
6305722 TAAAGTTATT
* * * *
6305732 ATTTATTTCTATTTGTAGAAGTTTAAATTTATTTTTTATTTTGATTG-TGTGGGTTTAAATTTTT
1 ATTTATTT-TATTTGTAAAAATTTAAATTTATTTTTTA-TTTGATTGATATGAGTTTAAATTTTT
6305796 AA-GGTATA
64 AATGGTATA
* * *
6305804 ATTTATTTTGATTTGTAAAAATTTAAATGTGTTTTTTATTAGATATGATATGAGTTTAAATTTTT
1 ATTTATTTT-ATTTGTAAAAATTTAAATTTATTTTTTATTTGAT-TGATATGAGTTTAAATTTTT
*
6305869 AATGGTGTA
64 AATGGTATA
* **
6305878 ATTTAATTTTCTTCATAAAAATTTAAGATTTATTTTTTAATTTGATT
1 ATTT-ATTTTATTTGTAAAAATTTAA-ATTTATTTTTT-ATTTGATT
6305925 ACAAAACTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
71 6 0.06
72 34 0.34
73 17 0.17
74 22 0.22
75 15 0.15
76 6 0.06
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (72 bp):
ATTTATTTTATTTGTAAAAATTTAAATTTATTTTTTATTTGATTGATATGAGTTTAAATTTTTAA
TGGTATA
Found at i:6305999 original size:9 final size:9
Alignment explanation
Indices: 6305985--6306042 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
6305975 AGTTTCGAAG
6305985 AAGAAAAAA
1 AAGAAAAAA
6305994 AAGAAAAAA
1 AAGAAAAAA
*
6306003 AAGAAAGAA
1 AAGAAAAAA
*
6306012 AAG-AAAGA
1 AAGAAAAAA
6306020 AAGAAAAAA
1 AAGAAAAAA
6306029 AA-AAAGAAA
1 AAGAAA-AAA
6306038 AAGAA
1 AAGAA
6306043 TGGGGGAGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 9 0.21
9 31 0.74
10 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:6311968 original size:86 final size:86
Alignment explanation
Indices: 6311860--6312017 Score: 237
Period size: 86 Copynumber: 1.8 Consensus size: 86
6311850 AAATAAATCT
* * * *
6311860 GATTCTCAAATACAATCTATGCATTAGTCTCATTTTTGCAGTCTGACATTTATAATCAATCAACT
1 GATTCTCAAATACAATCTATGCATTAGTCTAATCTTTGCAATCTGACATTTACAATCAATCAACT
6311925 TTTTTTTACCAAAAGGAATTC
66 TTTTTTTACCAAAAGGAATTC
* * *
6311946 GATTCTCATATACAAT-TAATGCATTAGTCTAATCTTTGCAATTTGACATTTACAATCGATCAAC
1 GATTCTCAAATACAATCT-ATGCATTAGTCTAATCTTTGCAATCTGACATTTACAATCAATCAAC
6312010 TTTTTTTT
65 TTTTTTTT
6312018 TCTAAAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 1 0.02
86 63 0.98
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (86 bp):
GATTCTCAAATACAATCTATGCATTAGTCTAATCTTTGCAATCTGACATTTACAATCAATCAACT
TTTTTTTACCAAAAGGAATTC
Found at i:6312469 original size:166 final size:166
Alignment explanation
Indices: 6312160--6312469 Score: 401
Period size: 166 Copynumber: 1.9 Consensus size: 166
6312150 TCTATGTATC
* * * *
6312160 ATGCATTAGTCTTATCAACTTCTTTCATATCAGAATGAAGTTGATTTCCATTTACAATCTATGCA
1 ATGCATTAGTCTTATCAACTTCTTTCATATCAAAAAGAAGTTGATTTCCATTAACAATATATGCA
** * ** * *
6312225 CTAATCACATTTATTTTAAAACAAAATTCATGCATTAGTCTCATCTTTTGAATTTTAATCTATAT
66 CTAATCACATTTATTCAAAAACAAAATTCATGCATTAGTCTCATATTTTGAATTTTAATAAAAAA
*
6312290 ATTAGTCTATTATTTACAGTTTAACATTTATAATCT
131 ATTAGTATATTATTTACAGTTTAACATTTATAATCT
* *
6312326 ATGCATTAGTCTTATCAACTTCTTTCATATCAAAAAGAATTTGATTTCTATTAACAATATATGCA
1 ATGCATTAGTCTTATCAACTTCTTTCATATCAAAAAGAAGTTGATTTCCATTAACAATATATGCA
* * * * *
6312391 TTTATCATATTTATTCAAAAATAGAATTCATGCATTCA-TCAT-ATATTTTGAATTTTAATAAAA
66 CTAATCACATTTATTCAAAAACAAAATTCATGCATT-AGTC-TCATATTTTGAATTTTAATAAAA
6312454 AAATTTA-TATATTATT
129 AAA-TTAGTATATTATT
6312470 CATATCTTTT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
166 117 0.96
167 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (166 bp):
ATGCATTAGTCTTATCAACTTCTTTCATATCAAAAAGAAGTTGATTTCCATTAACAATATATGCA
CTAATCACATTTATTCAAAAACAAAATTCATGCATTAGTCTCATATTTTGAATTTTAATAAAAAA
ATTAGTATATTATTTACAGTTTAACATTTATAATCT
Found at i:6312485 original size:40 final size:38
Alignment explanation
Indices: 6312429--6312566 Score: 109
Period size: 38 Copynumber: 3.6 Consensus size: 38
6312419 CATGCATTCA
* *
6312429 TCATATATTTTGAATTTTAATAAAAAAATTTATATATTAT
1 TCATATCTTTTGAATTTCAAT-AAAAAATTTATA-ATTAT
* *
6312469 TCATATCTTTTTAATTTCAATAAATAATTTATAATTAT
1 TCATATCTTTTGAATTTCAATAAAAAATTTATAATTAT
* * * ** * *
6312507 TAATATC-ATTCAAAATCTAATAAATAATTTATACATTAG
1 TCATATCTTTTGAATTTC-AATAAAAAATTTATA-ATTAT
*
6312546 CCATATCTTTT-ATATTTCAAT
1 TCATATCTTTTGA-ATTTCAAT
6312567 TAACTTTAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
37 6 0.08
38 26 0.33
39 24 0.30
40 23 0.29
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (38 bp):
TCATATCTTTTGAATTTCAATAAAAAATTTATAATTAT
Found at i:6312858 original size:16 final size:14
Alignment explanation
Indices: 6312837--6312891 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
6312827 ATAATTTTTT
6312837 AATATATTCATAAAAA
1 AATATATT--TAAAAA
*
6312853 AATATATTTTAAAA
1 AATATATTTAAAAA
*
6312867 AATATTTTTTAAAAA
1 AATA-TATTTAAAAA
*
6312882 AATCTATTTA
1 AATATATTTA
6312892 GAAATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 14 0.42
15 11 0.33
16 8 0.24
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATATTTAAAAA
Found at i:6312866 original size:14 final size:14
Alignment explanation
Indices: 6312849--6312882 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6312839 TATATTCATA
6312849 AAAAAATATATTTT
1 AAAAAATATATTTT
*
6312863 AAAAAATATTTTTT
1 AAAAAATATATTTT
6312877 AAAAAA
1 AAAAAA
6312883 ATCTATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAAATATATTTT
Found at i:6313154 original size:25 final size:24
Alignment explanation
Indices: 6313096--6313160 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
6313086 AACAAATTAA
*
6313096 AATAAA-TTAAA-ATTA-TTTATT
1 AATAAATTTAAATAATATTTTATT
*
6313117 TATAAATTTAAATAATATTTTATT
1 AATAAATTTAAATAATATTTTATT
6313141 AATAAAATTTAAATAATATT
1 AAT-AAATTTAAATAATATT
6313161 AACGCTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 5 0.14
22 5 0.14
23 3 0.08
24 8 0.22
25 16 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAAATTTAAATAATATTTTATT
Found at i:6317296 original size:2 final size:2
Alignment explanation
Indices: 6317286--6317318 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6317276 TGTGCGTGTG
*
6317286 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6317319 GCATACTGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6319312 original size:2 final size:2
Alignment explanation
Indices: 6319305--6319334 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6319295 AACCTCTTGC
6319305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6319335 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6320563 original size:2 final size:2
Alignment explanation
Indices: 6320558--6320582 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6320548 TCTACTCTCT
6320558 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
6320583 GGGTGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6324223 original size:35 final size:32
Alignment explanation
Indices: 6324133--6324231 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 32
6324123 AGCCATCAAC
6324133 CATCAGTCAATTTCAAATTGAATTTTCTAATCAT
1 CATCAGTCAATTTCAAATTGAA--TTCTAATCAT
*
6324167 CAGTCGTTGATCAATTTCAAATTGAATTCTAACTGCAAT
1 CA-TC--AG-TCAATTTCAAATTGAATTCTAA-T-C-AT
6324206 CATCAGTCAATTTCAAATTGAATTCT
1 CATCAGTCAATTTCAAATTGAATTCT
6324232 CTAACAATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
34 2 0.04
35 22 0.39
36 7 0.12
37 2 0.04
38 19 0.34
39 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (32 bp):
CATCAGTCAATTTCAAATTGAATTCTAATCAT
Found at i:6328617 original size:2 final size:2
Alignment explanation
Indices: 6328610--6328638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6328600 AAAGAGCCAA
6328610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6328639 GTATTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6328881 original size:22 final size:21
Alignment explanation
Indices: 6328856--6328905 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
6328846 ATTTATTTAG
6328856 TAAAATATTAAAAA-TATTAATA
1 TAAAATATTAAAAATTA-TAA-A
*
6328878 TAAAATATTTAAAATTATAAA
1 TAAAATATTAAAAATTATAAA
6328899 TAAAATA
1 TAAAATA
6328906 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
22 16 0.62
23 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAATATTAAAAATTATAAA
Found at i:6328900 original size:23 final size:23
Alignment explanation
Indices: 6328856--6328916 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
6328846 ATTTATTTAG
* *
6328856 TAAAATA-TTAAAAATATTAATA
1 TAAAATATTTAAAATTATAAATA
6328878 TAAAATATTTAAAATTATAAATA
1 TAAAATATTTAAAATTATAAATA
*
6328901 -AAATAAATTTAAAATT
1 TAAA-ATATTTAAAATT
6328917 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAAATATTTAAAATTATAAATA
Found at i:6331061 original size:3 final size:3
Alignment explanation
Indices: 6331053--6331078 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6331043 ATATTAACAA
6331053 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6331079 TTGTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6335358 original size:18 final size:18
Alignment explanation
Indices: 6335335--6335376 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6335325 AATAAATTCT
*
6335335 AAAAATTCTAAAAAAATA
1 AAAAATACTAAAAAAATA
6335353 AAAAATACTAAAAAAATA
1 AAAAATACTAAAAAAATA
*
6335371 GAAAAT
1 AAAAAT
6335377 CTAGTTCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATACTAAAAAAATA
Found at i:6340592 original size:23 final size:23
Alignment explanation
Indices: 6340563--6340607 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6340553 ATTATAATTG
6340563 TTAATGCGAATAAAGTCATATAA
1 TTAATGCGAATAAAGTCATATAA
6340586 TTAATGCGAATAAAGTCATATA
1 TTAATGCGAATAAAGTCATATA
6340608 GAAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (23 bp):
TTAATGCGAATAAAGTCATATAA
Found at i:6340652 original size:28 final size:28
Alignment explanation
Indices: 6340597--6340674 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
6340587 TAATGCGAAT
6340597 AAAGTCATATAGAAG-AAAAAATTTAAC
1 AAAGTCATATAGAAGAAAAAAATTTAAC
*
6340624 AAAGTCATATATAAGAAAAAAATTTAAC
1 AAAGTCATATAGAAGAAAAAAATTTAAC
6340652 AAAGTC--AT-GAAGAAAAAAATTTA
1 AAAGTCATATAGAAGAAAAAAATTTA
6340675 GCAGAAGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
25 14 0.29
26 2 0.04
27 14 0.29
28 18 0.38
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.23
Consensus pattern (28 bp):
AAAGTCATATAGAAGAAAAAAATTTAAC
Found at i:6343065 original size:24 final size:24
Alignment explanation
Indices: 6343009--6343065 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
6342999 CCAAGAAAGC
*
6343009 ATAAAGGACCACAATCAAAAAGAA
1 ATAAAGGATCACAATCAAAAAGAA
6343033 ATAAAGGATCACAATCAAAAAGAA
1 ATAAAGGATCACAATCAAAAAGAA
6343057 ATAAAGGAT
1 ATAAAGGAT
6343066 GGTGACTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.12
Consensus pattern (24 bp):
ATAAAGGATCACAATCAAAAAGAA
Found at i:6365278 original size:21 final size:20
Alignment explanation
Indices: 6365252--6365304 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 20
6365242 AAGTTAAGAA
6365252 GTTTGGAGTTTAAGGTTTGGG
1 GTTTGG-GTTTAAGGTTTGGG
*
6365273 GTTTGGGTTTAAGGTTTGAG
1 GTTTGGGTTTAAGGTTTGGG
6365293 GTCTTGGGTTTA
1 GT-TTGGGTTTA
6365305 CGGGTTAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.13, C:0.02, G:0.40, T:0.45
Consensus pattern (20 bp):
GTTTGGGTTTAAGGTTTGGG
Found at i:6365324 original size:21 final size:21
Alignment explanation
Indices: 6365300--6365366 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
6365290 GAGGTCTTGG
*
6365300 GTTTACGGGTTAGGGTTTAAA
1 GTTTAAGGGTTAGGGTTTAAA
* *
6365321 GTTTAAAGGTTAGGGGTTAAA
1 GTTTAAGGGTTAGGGTTTAAA
* * *
6365342 GTTTAGGGGTTAGGATTTAAG
1 GTTTAAGGGTTAGGGTTTAAA
6365363 GTTT
1 GTTT
6365367 GAGGTTTGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.01, G:0.34, T:0.39
Consensus pattern (21 bp):
GTTTAAGGGTTAGGGTTTAAA
Found at i:6365360 original size:14 final size:14
Alignment explanation
Indices: 6365323--6365353 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6365313 GGTTTAAAGT
*
6365323 TTAAAGGTTAGGGG
1 TTAAAGTTTAGGGG
6365337 TTAAAGTTTAGGGG
1 TTAAAGTTTAGGGG
6365351 TTA
1 TTA
6365354 GGATTTAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (14 bp):
TTAAAGTTTAGGGG
Found at i:6365450 original size:21 final size:21
Alignment explanation
Indices: 6365426--6365475 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6365416 CAAGTTTCAA
* *
6365426 GTTTAGGGATTGGGGTTTGGG
1 GTTTAAGGATTGGGATTTGGG
* *
6365447 GTTTAAGGTTTGTGATTTGGG
1 GTTTAAGGATTGGGATTTGGG
*
6365468 GTATAAGG
1 GTTTAAGG
6365476 TCTCGAGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (21 bp):
GTTTAAGGATTGGGATTTGGG
Found at i:6365486 original size:21 final size:20
Alignment explanation
Indices: 6365440--6365490 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6365430 AGGGATTGGG
* * *
6365440 GTTTGGGGTTTAAGGTTTGT
1 GTTTGGGGTATAAGGTTCGA
6365460 GATTTGGGGTATAAGGTCTCGA
1 G-TTTGGGGTATAAGGT-TCGA
6365482 GTTTGGGGT
1 GTTTGGGGT
6365491 TTTAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.14, C:0.04, G:0.41, T:0.41
Consensus pattern (20 bp):
GTTTGGGGTATAAGGTTCGA
Found at i:6365562 original size:28 final size:28
Alignment explanation
Indices: 6365531--6365595 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
6365521 TTCATGGTTC
*
6365531 AAGGTTTAGAATTT-AAGATTTAGGAGTT
1 AAGGTTTAGAATTTAAAG-GTTAGGAGTT
* **
6365559 AAGGGTTAGGGTTTAAAGGTTAGGAGTT
1 AAGGTTTAGAATTTAAAGGTTAGGAGTT
*
6365587 AGGGTTTAG
1 AAGGTTTAG
6365596 GGGTTCAGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.35
Consensus pattern (28 bp):
AAGGTTTAGAATTTAAAGGTTAGGAGTT
Found at i:6365596 original size:14 final size:14
Alignment explanation
Indices: 6365550--6365592 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6365540 AATTTAAGAT
6365550 TTAGGAGTTAAGGG
1 TTAGGAGTTAAGGG
*
6365564 TTAGG-GTTTAAAGG
1 TTAGGAG-TTAAGGG
6365578 TTAGGAGTT-AGGG
1 TTAGGAGTTAAGGG
6365591 TT
1 TT
6365593 TAGGGGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 6 0.24
14 18 0.72
15 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.35
Consensus pattern (14 bp):
TTAGGAGTTAAGGG
Found at i:6365600 original size:21 final size:21
Alignment explanation
Indices: 6365549--6365600 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
6365539 GAATTTAAGA
* *
6365549 TTTAGGAGTTAAGGGTTAGGG
1 TTTAGGGGTTAAGAGTTAGGG
** *
6365570 TTTAAAGGTTAGGAGTTAGGG
1 TTTAGGGGTTAAGAGTTAGGG
6365591 TTTAGGGGTT
1 TTTAGGGGTT
6365601 CAGGTATAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
TTTAGGGGTTAAGAGTTAGGG
Found at i:6367749 original size:29 final size:30
Alignment explanation
Indices: 6367689--6367749 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
6367679 AAGACATCCT
*
6367689 AAGATCTAAAAGAAAAAAAAGCAAAAAGAA
1 AAGATCTAAAAGAAAAAAAAGCAAAAACAA
*
6367719 AAGAT-TAAAA-AAAAACAAAGCAAATACAA
1 AAGATCTAAAAGAAAAA-AAAGCAAAAACAA
6367748 AA
1 AA
6367750 AAAGCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 18 0.64
30 5 0.18
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (30 bp):
AAGATCTAAAAGAAAAAAAAGCAAAAACAA
Found at i:6367767 original size:46 final size:46
Alignment explanation
Indices: 6367697--6367799 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
6367687 CTAAGATCTA
*
6367697 AAAG-AAAAAAAAGCAAAAAGAAAAGATTAA-AAAAAAA-CAAAGC
1 AAAGTAAAAAAAAGCAAAAAAAAAAGATTAAGAAAAAAAGCAAAGC
6367740 AAA-TACAAAAAAAGCAAAAAAAAAAAAGATTAAGAAAAAAAGCAAAGC
1 AAAGTA-AAAAAAAGC--AAAAAAAAAAGATTAAGAAAAAAAGCAAAGC
6367788 AAAGTAAAAAAA
1 AAAGTAAAAAAA
6367800 GAAGAGTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
43 4 0.08
44 9 0.17
46 15 0.29
47 7 0.13
48 15 0.29
49 2 0.04
ACGTcount: A:0.77, C:0.07, G:0.11, T:0.06
Consensus pattern (46 bp):
AAAGTAAAAAAAAGCAAAAAAAAAAGATTAAGAAAAAAAGCAAAGC
Found at i:6367787 original size:33 final size:35
Alignment explanation
Indices: 6367750--6367816 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
6367740 AAATACAAAA
* *
6367750 AAAGCAAA-AAAAAAA-AAGATTAAGAAAAAAAGC
1 AAAGCAAAGAAAAAAAGAAGAGTAAAAAAAAAAGC
6367783 AAAGCAAAGTAAAAAAAGAAGAGTAAAAAAAAAA
1 AAAGCAAAG-AAAAAAAGAAGAGTAAAAAAAAAA
6367817 TCAGATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.28
35 7 0.24
36 14 0.48
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.06
Consensus pattern (35 bp):
AAAGCAAAGAAAAAAAGAAGAGTAAAAAAAAAAGC
Found at i:6368737 original size:2 final size:2
Alignment explanation
Indices: 6368730--6368770 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6368720 CATTCGGCAT
6368730 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6368771 TTTAATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6369569 original size:40 final size:40
Alignment explanation
Indices: 6369525--6369604 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
6369515 AAAAGTAAGC
6369525 ATATAAAAAAGCATATTATAATCTTGAGAATATAAAGGCT
1 ATATAAAAAAGCATATTATAATCTTGAGAATATAAAGGCT
6369565 ATATAAAAAAGCATATTATAATCTTGAGAATATAAAGGCT
1 ATATAAAAAAGCATATTATAATCTTGAGAATATAAAGGCT
6369605 TAAAGCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (40 bp):
ATATAAAAAAGCATATTATAATCTTGAGAATATAAAGGCT
Found at i:6371916 original size:25 final size:24
Alignment explanation
Indices: 6371888--6371938 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
6371878 AAAGTTAATG
6371888 ATTTAAA-ACACTTAAATCATTTAGA
1 ATTTAAAGA-ACTT-AATCATTTAGA
*
6371913 ATTTAAAGAAGTTAATCATTTAGA
1 ATTTAAAGAACTTAATCATTTAGA
6371937 AT
1 AT
6371939 CCTTAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 10 0.42
26 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (24 bp):
ATTTAAAGAACTTAATCATTTAGA
Found at i:6372936 original size:16 final size:16
Alignment explanation
Indices: 6372915--6372946 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6372905 GGATGGATTG
6372915 TGAATTGGAGATAAGC
1 TGAATTGGAGATAAGC
6372931 TGAATTGGAGATAAGC
1 TGAATTGGAGATAAGC
6372947 GGAGCTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
TGAATTGGAGATAAGC
Found at i:6373069 original size:15 final size:14
Alignment explanation
Indices: 6373042--6377282 Score: 1940
Period size: 15 Copynumber: 276.2 Consensus size: 14
6373032 TCTCCAACGC
6373042 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6373056 CCCGAAACCCCGAAA
1 CCCGAAA-CCCGAAA
6373071 CCCGAAACCGCGAAA
1 CCCGAAACC-CGAAA
*
6373086 ACCGAATACCCGAAA
1 CCCGAA-ACCCGAAA
6373101 CCCGGGAAACCCG-AA
1 CCC--GAAACCCGAAA
*
6373116 CCCGTGCAACCCGAAA
1 CCC--GAAACCCGAAA
6373132 CCCAGGAAACCCGAAA
1 CCC--GAAACCCGAAA
*
6373148 CCCGTAAACCCGAGA
1 CCCG-AAACCCGAAA
6373163 CCCGAATACCCGAAA
1 CCCGAA-ACCCGAAA
*
6373178 CCGGAAAACCCCGAACAA
1 CCCG-AAA-CCCG-A-AA
6373196 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6373210 CCCGAAACCCGCAAA
1 CCCGAAACCCG-AAA
6373225 CCCGAAACCC-AAA
1 CCCGAAACCCGAAA
6373238 CCCGAAA-CCGAAA
1 CCCGAAACCCGAAA
6373251 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6373265 CCCGAAA-CCG-AA
1 CCCGAAACCCGAAA
6373277 CCC-AAACCCGAAA
1 CCCGAAACCCGAAA
6373290 CCCGAAACCCGAGAA
1 CCCGAAACCCGA-AA
6373305 CCCCGAAA-CCGAAA
1 -CCCGAAACCCGAAA
**
6373319 CCTC--CCCCCGGAAA
1 CC-CGAAACCC-GAAA
6373333 CCCGAATCAACCCGAAAA
1 CCCG-A--AACCCG-AAA
*
6373351 CCCCGAAATCCAGAAA
1 -CCCGAAA-CCCGAAA
6373367 CCCGAATA-CCGAAAAA
1 CCCGAA-ACCCG--AAA
6373383 CCCCGAAACCCGGAAA
1 -CCCGAAACCC-GAAA
6373399 CCCCGAAACCCTGGAAA
1 -CCCGAAACCC--GAAA
6373416 CCCGAAACCCGGTAAA
1 CCCGAAACCC-G-AAA
**
6373432 CCCGGAAACCTCCGGTA
1 CCC-GAAA-C-CCGAAA
6373449 CCCGATAATCCTCGTGAAA
1 CCCGA-AA-CC-C--GAAA
6373468 GCCC-AAACCCG-AA
1 -CCCGAAACCCGAAA
* ****
6373481 CCCTAAAAAAATAAAA
1 CCC--GAAACCCGAAA
*
6373497 CCGACGACAACCCGGAAT
1 CC--CGA-AACCC-GAAA
**** *
6373515 GATTAAACCCTG-AT
1 CCCGAAACCC-GAAA
6373529 CCCGAAA-CCGAAA
1 CCCGAAACCCGAAA
6373542 CCCGTAAACCCG-AA
1 CCCG-AAACCCGAAA
6373556 CCCGGGAAACCCGAAA
1 CCC--GAAACCCGAAA
6373572 -CCGAAACCCGAAA
1 CCCGAAACCCGAAA
* *
6373585 ACCGAAAACCAGAAA
1 CCCG-AAACCCGAAA
6373600 CCCGGAAAACCCCGAGAAA
1 CCC-G-AAA-CCC--GAAA
* *
6373619 CACGGAAACGCCCGCAAC
1 C-CCGAAA--CCCG-AAA
6373637 CCCGAAACCCCGATAA
1 CCCGAAA-CCCGA-AA
6373653 CCCGAAACCCGTAACA
1 CCCGAAACCCG-AA-A
*
6373669 CCCTAAACCTCGCGAAA
1 CCCGAAA-C-C-CGAAA
*
6373686 CCCGACACCGCGAAA
1 CCCGAAACC-CGAAA
*
6373701 CCCGAAAACCCGCAA
1 CCCG-AAACCCGAAA
6373716 CCCGAAAACCCGAAA
1 CCCG-AAACCCGAAA
*
6373731 CCCGACACCGCGGAAA
1 CCCGAAACC-C-GAAA
* *
6373747 ACCG-CACCCGAAA
1 CCCGAAACCCGAAA
* *
6373760 -CCGAGAAACAGAAA
1 CCCGA-AACCCGAAA
6373774 CCCGTTCGTAAGACCCGAAA
1 -CC---CG-AA-ACCCGAAA
*
6373794 CCCGATAATCCCAAAA
1 CCCGA-AA-CCCGAAA
*
6373810 CCCGAAACCCAAGAA
1 CCCGAAACCCGA-AA
6373825 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6373839 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6373853 CCCGAAACCC-AAA
1 CCCGAAACCCGAAA
6373866 CCCAGTAAA-CCGAAAAA
1 CCC-G-AAACCCG--AAA
6373883 CTTCCGAAACCCGAAA
1 C--CCGAAACCCGAAA
6373899 CCCGATAACCCGAAA
1 CCCGA-AACCCGAAA
* *
6373914 -CCGAAATCCGTCGTAT
1 CCCGAAA-CC--CGAAA
*
6373930 CTCCGAAAACCGAAA
1 C-CCGAAACCCGAAA
*
6373945 CCCGAAAAACCG-AA
1 CCCG-AAACCCGAAA
6373959 CCCTGAAACCCCGAAA
1 CCC-GAAA-CCCGAAA
*
6373975 CCCGGTAACCTCGGAAA
1 CCC-GAAACC-C-GAAA
6373992 CCCGAAACCCGAAAA
1 CCCGAAACCCG-AAA
*
6374007 TCCCGCGAGATACACCGCGAA
1 --CC-CGA-A-AC-CCG-AAA
6374028 CCCGAAA-CCGAAA
1 CCCGAAACCCGAAA
6374041 CCCGAAA-CCGAAA
1 CCCGAAACCCGAAA
*
6374054 CCCGAAAACCGAAAA
1 CCCGAAACCCG-AAA
*
6374069 ACCGAAACCCG-AA
1 CCCGAAACCCGAAA
6374082 -CCGAAACCCGAAA
1 CCCGAAACCCGAAA
6374095 CCCGAAACCCGAAAA
1 CCCGAAACCCG-AAA
*
6374110 ACCGAAA-CCGAATA
1 CCCGAAACCCGAA-A
6374124 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6374138 CCCCGAAACCCCCAAA
1 -CCCGAAA-CCCGAAA
6374154 CTCCGAACACCCGAAA
1 C-CCGAA-ACCCGAAA
*
6374170 ACCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6374184 -CCGAAA-CCAAAA
1 CCCGAAACCCGAAA
6374196 CCCGAAAACCCGAAA
1 CCCG-AAACCCGAAA
6374211 CCCGGGAGAAACCCG-AA
1 CCC----GAAACCCGAAA
*
6374228 CACCGAAAACCCGATA
1 C-CCG-AAACCCGAAA
* *
6374244 CTACGAAAAGCCGAATA
1 C-CCG-AAACCCGAA-A
6374261 CCCG-AACCCGAATA
1 CCCGAAACCCGAA-A
*
6374275 CCCGAAAACCGAAA
1 CCCGAAACCCGAAA
*
6374289 CTCAGAAGAAACCCGAAA
1 C-C---CGAAACCCGAAA
*
6374307 CCCG-AA-CCTAAA
1 CCCGAAACCCGAAA
6374319 CCCGAAATCCCGTAAAA
1 CCCGAAA-CCCG--AAA
6374336 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6374350 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
* *
6374364 ACCGAAACCCAAAAA
1 CCCGAAACCC-GAAA
*
6374379 CCCGAAACCCAATAAA
1 CCCGAAACCC--GAAA
6374395 CCC--AACCC-AAA
1 CCCGAAACCCGAAA
*
6374406 ACCGAAACCCGAAAAA
1 CCCGAAACCCG--AAA
6374422 CCCGATAACCCGCGAAA
1 CCCGA-AA-CC-CGAAA
6374439 CCCG-AACCCGTAAGA
1 CCCGAAACCCG-AA-A
6374454 -CCGTAAA-CCGAAAA
1 CCCG-AAACCCG-AAA
*
6374468 CCCGAAACCGGAAA
1 CCCGAAACCCGAAA
*
6374482 CCCGAAACACGAAA
1 CCCGAAACCCGAAA
*
6374496 -CCGAAACCCGATA
1 CCCGAAACCCGAAA
*
6374509 CCCGAAAACCGAAA
1 CCCGAAACCCGAAA
6374523 CTCCGAAACCCGAAATA
1 C-CCGAAACCCG-AA-A
6374540 TCCCGAAACCTCGAAA
1 -CCCGAAACC-CGAAA
6374556 CCCGAATACCCGAAA
1 CCCGAA-ACCCGAAA
6374571 CCCGGATAA-CCG-AA
1 CCC-GA-AACCCGAAA
*
6374585 CCTCGAAACCCG-AC
1 CC-CGAAACCCGAAA
*
6374599 CCCGCAACCCGAAA
1 CCCGAAACCCGAAA
6374613 CCCGAAACCCCGAAA
1 CCCGAAA-CCCGAAA
6374628 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6374642 CCCGAAATCTCC-AAA
1 CCCGAAA-C-CCGAAA
6374657 CCCGAAATCCCTGAGAATAA
1 CCCGAAA-CCC---G-A-AA
*
6374677 CGCCGGAAACCCGGAA
1 C-CC-GAAACCCGAAA
6374693 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
* *
6374707 CCCGCATGATCTCGAAA
1 CCCG-A--AACCCGAAA
6374724 CCTCGTGGAAACCCTGAAA
1 CC-C---GAAACCC-GAAA
*
6374743 CCCGAAACGCGAAA
1 CCCGAAACCCGAAA
*
6374757 CTCCGCAACCCGAAA
1 C-CCGAAACCCGAAA
* *
6374772 CCCCGCACCCTCGCAAA
1 -CCCGAAACC-CG-AAA
6374789 -CCGAATAACCCGAATA
1 CCCG-A-AACCCGAA-A
6374805 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6374819 TCCCGAAACCCGAAA
1 -CCCGAAACCCGAAA
6374834 CCCAGAAATACCCGTAAA
1 CCC-G-AA-ACCCG-AAA
6374852 CCCGAAACCCTAGAAAA
1 CCCGAAACCC--G-AAA
* **
6374869 CCGGGTAAACCCTGACT
1 CC-CG-AAACCC-GAAA
* * *
6374886 CACGAAAACCGCAA
1 CCCGAAACCCGAAA
6374900 CCCGAAACCCCGAAGA
1 CCCGAAA-CCCGAA-A
6374916 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6374930 CCCGCAACCCTGAAA
1 CCCGAAACCC-GAAA
6374945 CCCGAAATCCCGAAA
1 CCCGAAA-CCCGAAA
6374960 CCCGAAACCC-ATAA
1 CCCGAAACCCGA-AA
6374974 CCCGAAA-CCGAAA
1 CCCGAAACCCGAAA
6374987 -CCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6375000 CCCGGAACCCG-AA
1 CCCGAAACCCGAAA
6375013 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6375027 CCCTGTGAAACCCGAAA
1 CCC---GAAACCCGAAA
** **
6375044 CCCTCAACCTTAGAA
1 CCCGAAACCCGA-AA
6375059 CCCG-AACCCTGAAA
1 CCCGAAACCC-GAAA
6375073 CCCG-AA-CCGAAA
1 CCCGAAACCCGAAA
*
6375085 CCCGAAACCCGACA
1 CCCGAAACCCGAAA
6375099 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6375113 -TCGAATACCCGAAAA
1 CCCGAA-ACCCG-AAA
** *
6375128 CTCCGCCACCGGCAAA
1 C-CCGAAACCCG-AAA
*
6375144 -CCGAAACTCGAAAA
1 CCCGAAACCCG-AAA
6375158 CCCGAAACCCTGGAAAA
1 CCCGAAACCC--G-AAA
*
6375175 CCCGAAACCCGTAA
1 CCCGAAACCCGAAA
6375189 CCCGCAAATCTCCGAAAA
1 CCCG-AAA-C-CCG-AAA
6375207 CCCGAAACCCGAAAA
1 CCCGAAACCCG-AAA
6375222 CCTCGAGAAACCCGAAA
1 CC-C--GAAACCCGAAA
6375239 CCCTGACGAAGACCCTGGATAAA
1 -CC---CGAA-ACCC--G--AAA
6375262 CCCGGATAACTCCGAAA
1 CCC-GA-AAC-CCGAAA
6375279 CCCGTGTAAACCCGGGAAA
1 CCC--G-AAACCC--GAAA
6375298 CCCGAAACCCCGAAA
1 CCCGAAA-CCCGAAA
6375313 CCCGAAAACCCGAAA
1 CCCG-AAACCCGAAA
6375328 CCTCG-AACCCGTAAAA
1 CC-CGAAACCCG--AAA
6375344 CCTACGAAACCCGTGAGAA
1 CC--CGAAACCC--GA-AA
* *
6375363 CTCTGAAAGCCGAAA
1 C-CCGAAACCCGAAA
* *
6375378 TCCGAAACCCGTAA
1 CCCGAAACCCGAAA
*
6375392 CCCGACA-CCGAAA
1 CCCGAAACCCGAAA
*
6375405 CCCGGAAATCCCGCAA
1 CCC-GAAA-CCCGAAA
*
6375421 -CCGAATACCCGGTGAA
1 CCCGAA-ACCC-G-AAA
*
6375437 CGCCGAAACCTTGGAAA
1 C-CCGAAACC--CGAAA
6375454 TCCCTGCGGAAACTTCGCTTGAAA
1 --CC--C-GAAAC--C-C--GAAA
*
6375478 CCCGAAACCCGCAA
1 CCCGAAACCCGAAA
*
6375492 CCCGAAACCCGAAC
1 CCCGAAACCCGAAA
*
6375506 CCCGAATACGCGTAATA
1 CCCGAA-ACCCG-AA-A
6375523 CCCGAAA-CCGAAGTA
1 CCCGAAACCCGAA--A
*
6375538 CTTTCGAAACCGCGGAAAA
1 C--CCGAAACC-C-G-AAA
*
6375557 CCCCAAAGCCTCTGAAA
1 CCCGAAA-CC-C-GAAA
6375574 CTCCTGCGTAAATCCCGAAA
1 --CC--CG-AAA-CCCGAAA
*
6375594 CCTCTAAACCGTCGAAA
1 CC-CGAAACC--CGAAA
* *
6375611 -CCGAAAACCGGAAT
1 CCCG-AAACCCGAAA
6375625 CCCGAAACCCGAATTA
1 CCCGAAACCCGAA--A
6375641 CCCGAAATCCCGAAA
1 CCCGAAA-CCCGAAA
*
6375656 CCCGATAA--AGAAAA
1 CCCGA-AACCCG-AAA
6375670 CCCG-AACCCG-AA
1 CCCGAAACCCGAAA
6375682 CCCTGAAACCCGAAA
1 CCC-GAAACCCGAAA
*
6375697 CCCGAAATTCCCGATA
1 CCCGAAA--CCCGAAA
6375713 CCCGAAAACCCGAGAA
1 CCCG-AAACCCGA-AA
*
6375729 CCCGAAAACCGAAA
1 CCCGAAACCCGAAA
*
6375743 -CCGAAAAACCGAAAA
1 CCCG-AAACCCG-AAA
6375758 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6375772 CCCCGAAACCCGTATAA
1 -CCCGAAACCCG-A-AA
*
6375789 CCCGCAACGAACCGATAAA
1 CCCG-AA--ACCCG--AAA
*
6375808 CCCGAAACACGGAAAA
1 CCCGAAAC-CCG-AAA
*
6375824 CCCGAATAAAACCGAAA
1 CCCG---AAACCCGAAA
*
6375841 -CTGAAACCCGTAATA
1 CCCGAAACCCG-AA-A
*
6375856 -CCGAAAGCCGAAAAA
1 CCCGAAACCCG--AAA
* *
6375871 ACCGAAAACCCGGACCAT
1 CCCG-AAACCC-GA--AA
*
6375889 CCCGGAACCTCTGGAAA
1 CCCGAAACC-C--GAAA
6375906 CCCCGGAAACCCGAATAA
1 -CCC-GAAACCCG-A-AA
6375924 CCTCTGGAAACCCGAAA
1 CC-C--GAAACCCGAAA
6375941 CCCTGGGAAACCCGCAACA
1 CCC---GAAACCCG-AA-A
*
6375960 CCCGTAGAAACCGGAAA
1 CCC---GAAACCCGAAA
*
6375977 CCCGATA-CCGAAA
1 CCCGAAACCCGAAA
6375990 CCTCTGAAACCCGAAA
1 CC-C-GAAACCCGAAA
* *
6376006 CACGAAAACCCCCGGGCAAC
1 CCCG-AAA--CCC--G-AAA
* *
6376026 CCCTTAAACCCCCATAA
1 CCC-GAAA-CCCGA-AA
6376043 CCCGAAAAACCCGAGAA
1 CCCG--AAACCCGA-AA
6376060 TCTCCGGACAAACCCGAAA
1 -C-CC-G--AAACCCGAAA
**
6376079 CCCGCCACCCGAAA
1 CCCGAAACCCGAAA
6376093 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6376107 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
* *
6376121 CCCGAATCCCGAAC
1 CCCGAAACCCGAAA
*
6376135 CCCAAAAACCCTGGAAA
1 CCC-GAAACCC--GAAA
* *
6376152 -CCGAATCCCGACA
1 CCCGAAACCCGAAA
* *
6376165 CCCGAACCCCGACA
1 CCCGAAACCCGAAA
6376179 CCCGACAACCCGGAAA
1 CCCGA-AACCC-GAAA
6376195 CCCGATAACCCGAAA
1 CCCGA-AACCCGAAA
*
6376210 CCCCGCAACCCGGAAGA
1 -CCCGAAACCC-GAA-A
6376227 -CCGAAACCCTGAAA
1 CCCGAAACCC-GAAA
*
6376241 CCCGAAACTCCGAAC
1 CCCGAAAC-CCGAAA
*
6376256 CCTCGAAACCCGATAT
1 CC-CGAAACCCGA-AA
*
6376272 CCCTGAAATCCGATTACA
1 CCC-GAAACCCGA--A-A
6376290 CCC--AACCCGAAA
1 CCCGAAACCCGAAA
*
6376302 CCAGAAACCC-AAA
1 CCCGAAACCCGAAA
* *
6376315 CCGCGGAAACCCTACA
1 CC-C-GAAACCCGAAA
6376331 CCCGAAA-CCGAAAA
1 CCCGAAACCCG-AAA
6376345 CCCG-AA-CCGAAA
1 CCCGAAACCCGAAA
6376357 CCCTAGGGGAAACCTCGAAA
1 CCC-----GAAACC-CGAAA
*
6376377 CCGGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6376391 CTCCGAATCCCGAAA
1 C-CCGAAACCCGAAA
6376406 -CCG-AACCCGAAA
1 CCCGAAACCCGAAA
6376418 CCCGAACACCCGGAAA
1 CCCGAA-ACCC-GAAA
*
6376434 CCCTGAAACCCGCACA
1 CCC-GAAACCCG-AAA
* *
6376450 CCCGACA-CCGACA
1 CCCGAAACCCGAAA
6376463 CCCGAAAACCCGAAAA
1 CCCG-AAACCCG-AAA
6376479 CCCGAAACCCGAAAA
1 CCCGAAACCCG-AAA
*
6376494 CCCG-AACCCGAAC
1 CCCGAAACCCGAAA
6376507 CCCGAAA-CCGTAAA
1 CCCGAAACCCG-AAA
6376521 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6376535 CCCGATAATACCG-AA
1 CCCGA-AA-CCCGAAA
*
6376550 CCTG-AACCC-AAA
1 CCCGAAACCCGAAA
6376562 TCCCGTGAAACCCGAATA
1 -CCC--GAAACCCGAA-A
6376580 CCTCGGACTAACCCGGAAA
1 CC-C-GA--AACCC-GAAA
6376599 CCCGATAACCCGAAA
1 CCCGA-AACCCGAAA
6376614 CCCGAATACCCGAAA
1 CCCGAA-ACCCGAAA
6376629 CCCTGAAACCCG-AA
1 CCC-GAAACCCGAAA
6376643 CTCTCGAAAACCCGAAA
1 C-C-CG-AAACCCGAAA
6376660 TCCCTGAAACCCGATAA
1 -CCC-GAAACCCGA-AA
*
6376677 CCAG-AACCCGAGATA
1 CCCGAAACCCGA-A-A
6376692 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6376706 CCCGGAAA-CCGCAAC
1 CCC-GAAACCCG-AAA
*
6376721 CCCGAAACCCGCAA
1 CCCGAAACCCGAAA
6376735 CCCGAAACCTCGAATA
1 CCCGAAACC-CGAA-A
6376751 CCCGGATATATCACCGGAAA
1 CCC-GA-A-A-C-CC-GAAA
* *
6376771 CCCGCAACCCGTACA
1 CCCGAAACCCG-AAA
* *
6376786 CCCGGAACCCG-AC
1 CCCGAAACCCGAAA
* *
6376799 CCCTGTAACCCGGAA
1 CCC-GAAACCCGAAA
6376814 CCCGCAAACTCCGAAA
1 CCCG-AAAC-CCGAAA
6376830 CCCG-AACCCGAATA
1 CCCGAAACCCGAA-A
*
6376844 CCCGAAACTCGAAA
1 CCCGAAACCCGAAA
*
6376858 CCCGAATCCCTGAAA
1 CCCGAAACCC-GAAA
*
6376873 CCCGATA-CCGAAA
1 CCCGAAACCCGAAA
6376886 CCCTGAAAACCCGTAAAAAA
1 CCC-G-AAACCCG----AAA
6376906 CCCCGGAAATACCCGAAA
1 -CCC-G-AA-ACCCGAAA
6376924 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
6376938 CCCGAAACCCGAAAA
1 CCCGAAACCCG-AAA
6376953 CCCGAAATCCCGAAA
1 CCCGAAA-CCCGAAA
6376968 -CCGAAACCC-AAA
1 CCCGAAACCCGAAA
6376980 CCCGAAAACCCGAAAA
1 CCCG-AAACCCG-AAA
**
6376996 CCCGAATACCCTCAA
1 CCCGAA-ACCCGAAA
*
6377011 CCCTAGATACCCGAAAA
1 CCC--GAAACCCG-AAA
6377028 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6377042 CCGGAAACCCTGAGAAA
1 CCCGAAACCC---GAAA
6377059 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
*
6377073 ACCGAACAACCACGAAA
1 CCCG-A-AACC-CGAAA
* * *
6377090 CCCTTATACCTAGAAA
1 CCC-GAAACC-CGAAA
*
6377106 CCCGACACCCGAAA
1 CCCGAAACCCGAAA
6377120 CCCGAAACCCGAAA
1 CCCGAAACCCGAAA
* *
6377134 CCCTAAAACCGGAAA
1 CCC-GAAACCCGAAA
* *
6377149 CCCGAATACCCTACA
1 CCCGAA-ACCCGAAA
*
6377164 CCCG-AACCCTAAA
1 CCCGAAACCCGAAA
*
6377177 -CCGAAAACTCCTAAA
1 CCCG-AAAC-CCGAAA
** *
6377192 CCCTCAACCCTAAA
1 CCCGAAACCCGAAA
* *
6377206 CCCTAAA-CCTAAA
1 CCCGAAACCCGAAA
* * *
6377219 CCATCTAAAACCTAAA
1 CC--CGAAACCCGAAA
6377235 CCCGAAACCCCGAAA
1 CCCGAAA-CCCGAAA
*
6377250 CTCCTAAA-CCGAATA
1 C-CCGAAACCCGAA-A
* *
6377265 CCCTAAAACCCTAAA
1 CCC-GAAACCCGAAA
6377280 CCC
1 CCC
6377283 CGCTAAAACC
Statistics
Matches: 3376, Mismatches: 353, Indels: 995
0.71 0.07 0.21
Matches are distributed among these distances:
11 8 0.00
12 89 0.03
13 269 0.08
14 803 0.24
15 878 0.26
16 542 0.16
17 348 0.10
18 174 0.05
19 135 0.04
20 69 0.02
21 35 0.01
22 18 0.01
23 4 0.00
24 4 0.00
ACGTcount: A:0.40, C:0.39, G:0.15, T:0.06
Consensus pattern (14 bp):
CCCGAAACCCGAAA
Found at i:6373131 original size:31 final size:31
Alignment explanation
Indices: 6373045--6377169 Score: 465
Period size: 29 Copynumber: 133.8 Consensus size: 31
6373035 CCAACGCCCC
6373045 GAAACCCGAAACCCG-AAACCCCGAAACCC--
1 GAAACCCGAAACCCGTAAA-CCCGAAACCCGG
*
6373074 GAAACCGCGAAAACCG-AATACCCGAAACCCGG
1 GAAACC-CGAAACCCGTAA-ACCCGAAACCCGG
* *
6373106 GAAACCCG-AACCCGTGCAACCCGAAACCCAG
1 GAAACCCGAAACCCGT-AAACCCGAAACCCGG
*
6373137 GAAACCCGAAACCCGTAAACCCGAGACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* *
6373166 GAATACCCGAAACCGGAAAACCCCGAACAACCC--
1 GAA-ACCCGAAACCCGTAAA-CCCG-A-AACCCGG
6373199 GAAACCCGAAACCCG-AAACCCGCAAACCC--
1 GAAACCCGAAACCCGTAAACCCG-AAACCCGG
6373228 GAAACCC-AAACCCG-AAA-CCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
6373254 GAAACCCGAAACCCG-AAA-CCG-AACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6373280 -AAACCCGAAACCCG-AAACCCGAGAACCC-C
1 GAAACCCGAAACCCGTAAACCCGA-AACCCGG
*
6373309 GAAA-CCGAAACCTCCCCCCGGAAACCCGAATCAACCC-G
1 GAAACCCGAAA------CCCGTAAACCCG-A--AACCCGG
* * *
6373347 AAAACCCCGAAATCCAG-AAACCCGAATA-CCGA
1 GAAA-CCCGAAA-CCCGTAAACCCGAA-ACCCGG
* * *
6373379 AAAACCCCGAAACCCGGAAACCCCGAAACCCTG
1 GAAA-CCCGAAACCCGTAAA-CCCGAAACCCGG
*
6373412 GAAACCCGAAACCCGGTAAACCCGGAAACCTCCG
1 GAAACCCGAAACCC-GTAAACCC-GAAACC-CGG
*
6373446 G-TACCCGATAATCCTCGTGAAAGCCC-AAACCC--
1 GAAACCCGA-AA-CC-CGT-AAA-CCCGAAACCCGG
* ****
6373478 G-AACCCTAAAAAAATAAAACCGACGACAACCCGG
1 GAAACCCGAAACCCGT-AAACC--CGA-AACCCGG
*
6373512 AATGATTAAACCCTG-ATCCCG-AAA-CCGAAACCC-G
1 ---G---AAACCC-GAAACCCGTAAACCCGAAACCCGG
* *
6373546 TAAACCCG-AACCCGGGAAACCCGAAA-CC--
1 GAAACCCGAAACCC-GTAAACCCGAAACCCGG
* * *
6373574 GAAACCCGAAAACCGAAAACCAGAAACCCGG
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* * * * *
6373605 AAAACCCCGAGAAACACGGAAACGCCCGCAACCC-C
1 GAAA-CCC--GAAACCCGTAAA--CCCGAAACCCGG
6373640 GAAACCCCGATAACCCG-AAACCCGTAACACCC--
1 GAAA-CCCGA-AACCCGTAAACCCG-AA-ACCCGG
* *
6373672 TAAACCTCGCGAAACCCG-ACACCGCGAAACCC-G
1 GAAA-C-C-CGAAACCCGTAAACC-CGAAACCCGG
* * *
6373705 AAAACCCGCAACCCGAAAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* * * *
6373734 GACACCGCGGAAAACCG--CACCCGAAA-CCGA
1 GAAACC-C-GAAACCCGTAAACCCGAAACCCGG
* *
6373764 GAAA-CAGAAACCCGTTCGTAAGACCCGAAACCCGA
1 GAAACCCGAAA-CC---CGTAA-ACCCGAAACCCGG
* * * *
6373799 TAATCCCAAAACCCG-AAACCCAAGAACCC--
1 GAAACCCGAAACCCGTAAACCCGA-AACCCGG
6373828 GAAACCCGAAACCCG-AAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
6373856 GAAACCC-AAACCCAGTAAA-CCGAAAAACTTCC--
1 GAAACCCGAAACCC-GTAAACCCG--AAAC--CCGG
6373888 GAAACCCGAAACCCG-ATAACCCGAAA-CC--
1 GAAACCCGAAACCCGTA-AACCCGAAACCCGG
* * *
6373916 GAAATCCGTCGTATCTCCG-AAAACCGAAACCC-G
1 GAAA-CC--CGAAAC-CCGTAAACCCGAAACCCGG
* *
6373949 AAAAACCG-AACCC-TGAAACCCCGAAACCC-G
1 GAAACCCGAAACCCGT-AAA-CCCGAAACCCGG
*
6373979 GTAACCTCGGAAACCCG-AAACCCGAAAATCCCGCG
1 GAAACC-C-GAAACCCGTAAACCCG-AAA-CCCG-G
6374014 AGATACACCGCG-AACCCG-AAA-CCGAAACCC--
1 -GA-A-ACC-CGAAACCCGTAAACCCGAAACCCGG
* *
6374044 GAAA-CCGAAACCCG-AAAACCGAAAAACC--
1 GAAACCCGAAACCCGTAAACCCG-AAACCCGG
6374072 GAAACCCG-AA-CCG-AAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6374098 GAAACCCGAAAAACCG-AAA-CCGAATACCC--
1 GAAACCCG-AAACCCGTAAACCCGAA-ACCCGG
*
6374127 GAAACCCGAAACCCCG-AAACCCCCAAACTCC--
1 GAAACCCGAAA-CCCGTAAA-CCCGAAAC-CCGG
*
6374158 GAACACCCGAAAACCG-AAACCCGAAA-CC--
1 GAA-ACCCGAAACCCGTAAACCCGAAACCCGG
* *
6374186 GAAA-CCAAAACCCGAAAACCCGAAACCCGGG
1 GAAACCCGAAACCCGTAAACCCGAAACCC-GG
* * *
6374217 AGAAACCCG-AACACCGAAAACCCGATACTAC-G
1 -GAAACCCGAAAC-CCGTAAACCCGAAAC-CCGG
* *
6374249 AAAAGCCGAATACCCG--AACCCGAATACCC--
1 GAAACCCGAA-ACCCGTAAACCCGAA-ACCCGG
* * * *
6374278 GAAAACCGAAACTCAGAAGAAACCCGAAACCCGAACC
1 GAAACCCGAAAC-CCG--TAAACCCGAAACCCG---G
*
6374315 TAAACCCGAAATCCCGTAAAACCCGAAACCC--
1 GAAACCCGAAA-CCCGT-AAACCCGAAACCCGG
* *
6374346 GAAACCCGAAACCCG-AAAACCGAAACCC-A
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* *
6374375 AAAACCCGAAACCCAATAAACCC--AACCC--
1 GAAACCCGAAACCC-GTAAACCCGAAACCCGG
* * *
6374403 -AAAACCGAAACCCGAAAAACCCGATAACCCGC
1 GAAACCCGAAACCCG-TAAACCCGA-AACCCGG
6374435 GAAACCCG-AACCCGTAAGA-CCGTAAA-CC-G
1 GAAACCCGAAACCCGTAA-ACCCG-AAACCCGG
* * *
6374464 AAAACCCGAAA-CCGGAAACCCGAAACAC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* *
6374492 GAAA-CCGAAACCCG-ATACCCGAAAACC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6374519 GAAACTCCGAAACCCGAAATATCCCGAAACCTC--
1 GAAAC-CCGAAACCCGTAA-A-CCCGAAACC-CGG
6374552 GAAACCCGAATACCCG-AAACCCGGATAA-CC--
1 GAAACCCGAA-ACCCGTAAACCC-GA-AACCCGG
* *
6374582 G-AACCTCGAAACCCG--ACCCCGCAACCC--
1 GAAACC-CGAAACCCGTAAACCCGAAACCCGG
6374609 GAAACCCGAAACCCCG-AAACCCGAAACCC--
1 GAAACCCGAAA-CCCGTAAACCCGAAACCCGG
6374638 GAAACCCGAAATCTCC--AAACCCGAAATCCCTGAG
1 GAAACCCGAAA-C-CCGTAAACCCGAAA-CCC-G-G
* *
6374672 AATAACGCCGGAAACCCG-GAACCCGAAACCC--
1 GA-AAC-CC-GAAACCCGTAAACCCGAAACCCGG
* * *
6374703 GAAACCCGCATGATCTCG-AAACCTCGTGGAAACCC-T
1 GAAACCCG-A--AACCCGTAAACC-C---GAAACCCGG
* *
6374739 GAAACCCGAAACGCG-AAACTCCGCAACCC--
1 GAAACCCGAAACCCGTAAAC-CCGAAACCCGG
* * *
6374768 GAAACCCCGCACCCTCGCAAA-CCGAATAACCC--
1 GAAA-CCCGAAACC-CGTAAACCCG-A-AACCCGG
6374800 GAATACCCGAAACCCG-AAATCCCGAAACCC--
1 GAA-ACCCGAAACCCGTAAA-CCCGAAACCCGG
*
6374830 GAAACCCAGAAATACCCGTAAACCCGAAACCCTAG
1 GAAACCC-G-AA-ACCCGTAAACCCGAAACCC-GG
* * * *
6374865 AAAACCGGGTAAACCC-T-GACTCACGAAAACC--
1 GAAACC-CG-AAACCCGTAAAC-C-CGAAACCCGG
*
6374896 GCAACCCGAAACCCCG-AAGACCCGAAACCC--
1 GAAACCCGAAA-CCCGTAA-ACCCGAAACCCGG
*
6374926 GAAACCCGCAACCC-TGAAACCCGAAATCCC--
1 GAAACCCGAAACCCGT-AAACCCGAAA-CCCGG
*
6374956 GAAACCCGAAACCCAT-AACCCGAAA-CC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6374983 GAAA-CCGAAACCCG-AAACCCGGAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
6375010 G-AACCCGAAACCCG-AAACCCTGTGAAACCC--
1 GAAACCCGAAACCCGTAAACCC---GAAACCCGG
** * *
6375040 GAAACCCTCAA-CCTTAGAACCCG-AACCC-T
1 GAAACCCGAAACCCGTA-AACCCGAAACCCGG
6375069 GAAACCCG-AA-CCG-AAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* *
6375095 GACACCCGAAACCCG-AAA-TCGAATACCC-G
1 GAAACCCGAAACCCGTAAACCCGAA-ACCCGG
* ** * * *
6375124 AAAACTCCGCCACCGGCAAA-CCGAAACTC-G
1 GAAAC-CCGAAACCCGTAAACCCGAAACCCGG
* *
6375154 AAAACCCGAAACCCTGGAAAACCCGAAACCC--
1 GAAACCCGAAACCC--GTAAACCCGAAACCCGG
* *
6375185 GTAACCCGCAAATCTCCGAAAACCCGAAACCC-G
1 GAAACCCG-AAA-C-CCGTAAACCCGAAACCCGG
*
6375218 AAAACCTCGAGAAACCCG-AAACCCTGACGAAGACCCTGG
1 GAAACC-C--GAAACCCGTAAA-CC---CGAA-ACCC-GG
*
6375257 ATAAACCCGGATAACTCCG-AAACCCGTGTAAACCCGG
1 -GAAACCC-GA-AAC-CCGTAAACCC--G-AAACCCGG
6375294 GAAACCCGAAACCCCG-AAACCCGAAAACCC--
1 GAAACCCGAAA-CCCGTAAACCCG-AAACCCGG
*
6375324 GAAACCTCG-AACCCGTAAAACCTACGAAACCCGT
1 GAAACC-CGAAACCCGT-AAACC--CGAAACCCGG
* * *
6375358 GAGAACTCTGAAAGCCG-AAATCCGAAACCC--
1 GA-AAC-CCGAAACCCGTAAACCCGAAACCCGG
* *
6375388 GTAACCCGACA-CCG-AAACCCGGAAATCCC--
1 GAAACCCGAAACCCGTAAACCC-GAAA-CCCGG
* * **
6375417 GCAA-CCGAATACCCGGTGAACGCCGAAACCTTG
1 GAAACCCGAA-ACCC-GTAAAC-CCGAAACCCGG
*
6375450 GAAATCCCTGCGGAAACTTCGCTTGAAACCCGAAACCC--
1 GAAA--CC--C-GAAAC--C-CGT-AAACCCGAAACCCGG
* * *
6375488 GCAACCCGAAACCCG-AACCCCGAATACGC-G
1 GAAACCCGAAACCCGTAAACCCGAA-ACCCGG
* *
6375518 TAATACCCGAAA-CCG-AAGTACTTTCGAAACCGCGG
1 GAA-ACCCGAAACCCGTAA--AC--CCGAAACC-CGG
* *
6375553 AAAACCCCAAAGCCTC-TGAAACTCCTGCGTAAATCCC--
1 GAAACCCGAAA-CC-CGT-AAA--CC--CG-AAA-CCCGG
* *
6375590 GAAACCTCTAAA-CCGTCGAAA-CCGAAAACC-G
1 GAAACC-CGAAACCCGT--AAACCCGAAACCCGG
*
6375621 GAATCCCGAAACCCG-AATTACCCGAAATCCC--
1 GAAACCCGAAACCCGTAA--ACCCGAAA-CCCGG
* *
6375652 GAAACCCGATAA--AGAAAACCCG-AACCC--
1 GAAACCCGA-AACCCGTAAACCCGAAACCCGG
6375679 G-AACCCTGAAACCCG-AAACCCGAAATTCCC--
1 GAAACCC-GAAACCCGTAAACCCGAAA--CCCGG
* *
6375709 GATACCCGAAAACCCG-AGAACCCGAAAACC--
1 GAAACCCG-AAACCCGTA-AACCCGAAACCCGG
* *
6375739 GAAA-CCGAAAAACCGAAAACCCGAAACCC--
1 GAAACCCG-AAACCCGTAAACCCGAAACCCGG
* *
6375768 GAAACCCCGAAACCCGTATAACCCGCAACGAACCGA
1 GAAA-CCCGAAACCCGTA-AACCCG-AA--ACCCGG
* * * *
6375804 TAAACCCGAAACACGGAAAACCCGAATAAAACC--
1 GAAACCCGAAAC-CCGTAAACCCG---AAACCCGG
* * *
6375837 GAAA-CTGAAACCCGTAATA-CCGAAAGCCGA
1 GAAACCCGAAACCCGTAA-ACCCGAAACCCGG
* * * *
6375867 AAAAACCGAAAACCCG--GA-CC--ATCCC-G
1 GAAACCCG-AAACCCGTAAACCCGAAACCCGG
* *
6375893 G-AACCTCTGGAAACCCCGGAAACCCGAATAACCTCTG
1 GAAACC-C--GAAA-CCCGTAAACCCG-A-AACC-CGG
* *
6375930 GAAACCCGAAACCCTGGGAAACCCGCAACACCCGTA
1 GAAACCCGAAACCC--GTAAACCCG-AA-ACCCG-G
* * *
6375966 GAAACCGGAAACCCG-ATA-CCGAAACCTC-T
1 GAAACCCGAAACCCGTAAACCCGAAACC-CGG
* *
6375995 GAAACCCGAAACACG-AAAACC----CCCGG
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* * ** *
6376021 GCAACCCCTTAAACCCCCATAACCCGAAAAACCCGA
1 G-AAACCC-GAAACCCGTA-AACCCG--AAACCCGG
* **
6376057 GAATCTCCGGACAAACCCG-AAACCCGCCACCC--
1 GAAAC-CC-G--AAACCCGTAAACCCGAAACCCGG
6376089 GAAACCCGAAACCCG-AAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* * * *
6376117 GAAACCCGAATCCCG-AACCCCAAAAACCCTG
1 GAAACCCGAAACCCGTAAACCC-GAAACCCGG
* * *
6376148 GAAA-CCGAATCCCG-ACACCCG-AACCC-C
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* *
6376175 GACACCCGACAACCCGGAAACCCGATAACCC--
1 GAAACCCGA-AACCCGTAAACCCGA-AACCCGG
* * *
6376206 GAAACCCCGCAACCCGGAAGA-CCGAAACCC-T
1 GAAA-CCCGAAACCCGTAA-ACCCGAAACCCGG
*
6376237 GAAACCCGAAACTCCG-AACCCTCGAAACCC--
1 GAAACCCGAAAC-CCGTAAACC-CGAAACCCGG
* * *
6376267 GATATCCCTGAAATCCGATTACACCC--AACCC--
1 GA-AACCC-GAAACCCG--TAAACCCGAAACCCGG
*
6376298 GAAACCAGAAACCC--AAACCGCGGAAACCC--
1 GAAACCCGAAACCCGTAAACC-C-GAAACCCGG
* * *
6376327 TACACCCGAAA-CCGAAAACCCG-AA-CC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6376353 GAAACCCTAGGGGAAACCTCG-AAACCGGAAACCC--
1 GAAACCC-----GAAACC-CGTAAACCCGAAACCCGG
*
6376387 GAAACTCCGAATCCCG-AAA-CCG-AACCC--
1 GAAAC-CCGAAACCCGTAAACCCGAAACCCGG
*
6376414 GAAACCCGAACACCCGGAAACCCTGAAACCC-G
1 GAAACCCGAA-ACCCGTAAACCC-GAAACCCGG
* * * *
6376446 CACACCCGACA-CCG-ACACCCGAAAACCC-G
1 GAAACCCGAAACCCGTAAACCCG-AAACCCGG
* *
6376475 AAAACCCGAAACCCGAAAACCCG-AACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6376503 GAACCCCGAAA-CCGTAAACCCGAAACCC--
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
* * *
6376531 GAAACCCGATAATACCGAACCTGAACCC-AAATCCCGT
1 GAAACCCG--AA-ACC---CGTAAACCCGAAA-CCCGG
*
6376568 GAAACCCGAATACCTCGGACTAACCCGGAAACCC--
1 GAAACCCGAA-ACC-CGTA--AACCC-GAAACCCGG
*
6376602 GATAACCCGAAACCCG-AATACCCGAAACCC-T
1 GA-AACCCGAAACCCGTAA-ACCCGAAACCCGG
* *
6376633 GAAACCCG-AACTCTCGAAAACCCGAAATCCC-T
1 GAAACCCGAAAC-C-CGTAAACCCGAAA-CCCGG
*
6376665 GAAACCCGATAACCAG--AACCCGAGATACCC--
1 GAAACCCGA-AACCCGTAAACCCGA-A-ACCCGG
* * *
6376695 GAAACCCGAAACCCGGAAA-CCGCAACCC-C
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6376724 GAAACCCGCAACCCG-AAACCTCGAATACCC-G
1 GAAACCCGAAACCCGTAAACC-CGAA-ACCCGG
* *
6376755 GATATATCACCGGAAACCCG-CAACCCGTACACCC-G
1 GA-A-A-C-CC-GAAACCCGTAAACCCG-AAACCCGG
* *
6376790 G-AACCCG-ACCCCTGT-AACCCGGAACCC-G
1 GAAACCCGAAACCC-GTAAACCCGAAACCCGG
*
6376818 CAAACTCCGAAACCCG--AACCCGAATACCC--
1 GAAAC-CCGAAACCCGTAAACCCGAA-ACCCGG
* *
6376847 GAAACTCGAAACCCG-AATCCCTGAAACCC--
1 GAAACCCGAAACCCGTAAACCC-GAAACCCGG
* *
6376876 GATA-CCGAAACCCTGAAAACCCGTAAA-----
1 GAAACCCGAAACCC-GTAAACCCG-AAACCCGG
6376903 -AAACCCCGGAAATACCCG-AAACCCGAAACCC--
1 GAAA-CCC-G-AA-ACCCGTAAACCCGAAACCCGG
*
6376934 GAAACCCGAAACCCGAAAACCCGAAATCCC--
1 GAAACCCGAAACCCGTAAACCCGAAA-CCCGG
6376964 GAAA-CCGAAACCC--AAACCCGAAAACCC-G
1 GAAACCCGAAACCCGTAAACCCG-AAACCCGG
* * *
6376992 AAAACCCGAATACCC-TCAACCCTAGATACCC-G
1 GAAACCCGAA-ACCCGTAAACCC--GAAACCCGG
* * *
6377024 AAAACCCGAAACCCG-AAACCGGAAACCCTGA
1 GAAACCCGAAACCCGTAAACCCGAAACCC-GG
* * **
6377055 GAAACCCGAAACCCG-AAAACCGAACAACCAC
1 GAAACCCGAAACCCGTAAACCCGAA-ACCCGG
* * * *
6377086 GAAACCCTTATACCTAG-AAACCCGACACCC--
1 GAAACCC-GAAACC-CGTAAACCCGAAACCCGG
* *
6377116 GAAACCCGAAACCCG-AAACCCTAAAACC-G
1 GAAACCCGAAACCCGTAAACCCGAAACCCGG
*
6377145 GAAACCCGAATACCC-TACACCCGAA
1 GAAACCCGAA-ACCCGTAAACCCGAA
6377170 CCCTAAACCG
Statistics
Matches: 3205, Mismatches: 380, Indels: 1021
0.70 0.08 0.22
Matches are distributed among these distances:
25 27 0.01
26 112 0.03
27 210 0.07
28 331 0.10
29 501 0.16
30 443 0.14
31 425 0.13
32 377 0.12
33 190 0.06
34 126 0.04
35 149 0.05
36 155 0.05
37 55 0.02
38 46 0.01
39 19 0.01
40 29 0.01
41 10 0.00
ACGTcount: A:0.40, C:0.39, G:0.15, T:0.06
Consensus pattern (31 bp):
GAAACCCGAAACCCGTAAACCCGAAACCCGG
Found at i:6373318 original size:6 final size:7
Alignment explanation
Indices: 6373042--6377282 Score: 1940
Period size: 7 Copynumber: 552.4 Consensus size: 7
6373032 TCTCCAACGC
6373042 CCCGAAA
1 CCCGAAA
6373049 CCCGAAA
1 CCCGAAA
6373056 CCCGAAA
1 CCCGAAA
6373063 CCCCGAAA
1 -CCCGAAA
6373071 CCCGAAA
1 CCCGAAA
6373078 CCGCGAAA
1 CC-CGAAA
*
6373086 ACCGAATA
1 CCCGAA-A
6373094 CCCGAAA
1 CCCGAAA
6373101 CCCGGGAAA
1 CCC--GAAA
6373110 CCCG-AA
1 CCCGAAA
*
6373116 CCCGTGCAA
1 CCC--GAAA
6373125 CCCGAAA
1 CCCGAAA
6373132 CCCAGGAAA
1 CCC--GAAA
6373141 CCCGAAA
1 CCCGAAA
6373148 CCCGTAAA
1 CCCG-AAA
*
6373156 CCCGAGA
1 CCCGAAA
6373163 CCCGAATA
1 CCCGAA-A
6373171 CCCGAAA
1 CCCGAAA
*
6373178 CCGGAAAA
1 CCCG-AAA
6373186 CCCCGAACAA
1 -CCCG-A-AA
6373196 CCCGAAA
1 CCCGAAA
6373203 CCCGAAA
1 CCCGAAA
6373210 CCCGAAA
1 CCCGAAA
6373217 CCCGCAAA
1 CCCG-AAA
6373225 CCCGAAA
1 CCCGAAA
6373232 CCC-AAA
1 CCCGAAA
6373238 CCCGAAA
1 CCCGAAA
6373245 -CCGAAA
1 CCCGAAA
6373251 CCCGAAA
1 CCCGAAA
6373258 CCCGAAA
1 CCCGAAA
6373265 CCCGAAA
1 CCCGAAA
6373272 -CCG-AA
1 CCCGAAA
6373277 CCC-AAA
1 CCCGAAA
6373283 CCCGAAA
1 CCCGAAA
6373290 CCCGAAA
1 CCCGAAA
6373297 CCCGAGAA
1 CCCGA-AA
6373305 CCCCGAAA
1 -CCCGAAA
6373313 -CCGAAA
1 CCCGAAA
**
6373319 CCTC--CC
1 CC-CGAAA
6373325 CCCGGAAA
1 CCC-GAAA
6373333 CCCGAATCAA
1 CCCG-A--AA
6373343 CCCGAAAA
1 CCCG-AAA
6373351 CCCCGAAA
1 -CCCGAAA
*
6373359 TCCAGAAA
1 -CCCGAAA
6373367 CCCGAATA
1 CCCGAA-A
6373375 -CCGAAAAA
1 CCCG--AAA
6373383 CCCCGAAA
1 -CCCGAAA
6373391 CCCGGAAA
1 CCC-GAAA
6373399 CCCCGAAA
1 -CCCGAAA
6373407 CCCTGGAAA
1 CCC--GAAA
6373416 CCCGAAA
1 CCCGAAA
6373423 CCCGGTAAA
1 CCC-G-AAA
6373432 CCCGGAAA
1 CCC-GAAA
**
6373440 CCTCCGGTA
1 -C-CCGAAA
6373449 CCCGATAA
1 CCCGA-AA
6373457 TCCTCGTGAAA
1 -CC-C--GAAA
6373468 GCCC-AAA
1 -CCCGAAA
6373475 CCCG-AA
1 CCCGAAA
*
6373481 CCCTAAAAA
1 CCC--GAAA
****
6373490 AATAAAA
1 CCCGAAA
6373497 CCGACGACAA
1 CC--CGA-AA
*
6373507 CCCGGAAT
1 CCC-GAAA
****
6373515 GATTAAA
1 CCCGAAA
*
6373522 CCCTG-AT
1 CCC-GAAA
6373529 CCCGAAA
1 CCCGAAA
6373536 -CCGAAA
1 CCCGAAA
6373542 CCCGTAAA
1 CCCG-AAA
6373550 CCCG-AA
1 CCCGAAA
6373556 CCCGGGAAA
1 CCC--GAAA
6373565 CCCGAAA
1 CCCGAAA
6373572 -CCGAAA
1 CCCGAAA
6373578 CCCGAAA
1 CCCGAAA
*
6373585 ACCGAAAA
1 CCCG-AAA
*
6373593 CCAGAAA
1 CCCGAAA
6373600 CCCGGAAAA
1 CCC-G-AAA
6373609 CCCCGAGAAA
1 -CCC--GAAA
*
6373619 CACGGAAA
1 C-CCGAAA
*
6373627 CGCCCGCAAC
1 --CCCG-AAA
6373637 CCCGAAA
1 CCCGAAA
6373644 CCCCGATAA
1 -CCCGA-AA
6373653 CCCGAAA
1 CCCGAAA
6373660 CCCGTAACA
1 CCCG-AA-A
*
6373669 CCCTAAA
1 CCCGAAA
6373676 CCTCGCGAAA
1 -C-C-CGAAA
*
6373686 CCCGACA
1 CCCGAAA
6373693 CCGCGAAA
1 CC-CGAAA
6373701 CCCGAAAA
1 CCCG-AAA
*
6373709 CCCGCAA
1 CCCGAAA
6373716 CCCGAAAA
1 CCCG-AAA
6373724 CCCGAAA
1 CCCGAAA
*
6373731 CCCGACA
1 CCCGAAA
6373738 CCGCGGAAA
1 CC-C-GAAA
* *
6373747 ACCG-CA
1 CCCGAAA
6373753 CCCGAAA
1 CCCGAAA
6373760 -CCGAGAA
1 CCCGA-AA
* *
6373767 ACAGAAA
1 CCCGAAA
6373774 CCCGTTCGTAAGA
1 -CC---CG-AA-A
6373787 CCCGAAA
1 CCCGAAA
6373794 CCCGATAA
1 CCCGA-AA
*
6373802 TCCCAAAA
1 -CCCGAAA
6373810 CCCGAAA
1 CCCGAAA
*
6373817 CCCAAGAA
1 CCCGA-AA
6373825 CCCGAAA
1 CCCGAAA
6373832 CCCGAAA
1 CCCGAAA
6373839 CCCGAAA
1 CCCGAAA
6373846 CCCGAAA
1 CCCGAAA
6373853 CCCGAAA
1 CCCGAAA
6373860 CCC-AAA
1 CCCGAAA
6373866 CCCAGTAAA
1 CCC-G-AAA
6373875 -CCGAAAAA
1 CCCG--AAA
6373883 CTTCCGAAA
1 C--CCGAAA
6373892 CCCGAAA
1 CCCGAAA
6373899 CCCGATAA
1 CCCGA-AA
6373907 CCCGAAA
1 CCCGAAA
6373914 -CCGAAA
1 CCCGAAA
* *
6373920 TCCGTCGTAT
1 -CC--CGAAA
6373930 CTCCGAAA
1 C-CCGAAA
*
6373938 ACCGAAA
1 CCCGAAA
6373945 CCCGAAAA
1 CCCG-AAA
*
6373953 ACCG-AA
1 CCCGAAA
6373959 CCCTGAAA
1 CCC-GAAA
6373967 CCCCGAAA
1 -CCCGAAA
*
6373975 CCCGGTAA
1 CCC-GAAA
6373983 CCTCGGAAA
1 CC-C-GAAA
6373992 CCCGAAA
1 CCCGAAA
6373999 CCCGAAAA
1 CCCG-AAA
6374007 TCCCGCGAGATA
1 --CC-CGA-A-A
*
6374019 CACCGCGAA
1 C-CCG-AAA
6374028 CCCGAAA
1 CCCGAAA
6374035 -CCGAAA
1 CCCGAAA
6374041 CCCGAAA
1 CCCGAAA
6374048 -CCGAAA
1 CCCGAAA
6374054 CCCGAAA
1 CCCGAAA
*
6374061 ACCGAAAA
1 CCCG-AAA
*
6374069 ACCGAAA
1 CCCGAAA
6374076 CCCG-AA
1 CCCGAAA
6374082 -CCGAAA
1 CCCGAAA
6374088 CCCGAAA
1 CCCGAAA
6374095 CCCGAAA
1 CCCGAAA
6374102 CCCGAAAA
1 CCCG-AAA
*
6374110 ACCGAAA
1 CCCGAAA
6374117 -CCGAATA
1 CCCGAA-A
6374124 CCCGAAA
1 CCCGAAA
6374131 CCCGAAA
1 CCCGAAA
6374138 CCCCGAAA
1 -CCCGAAA
*
6374146 CCCCCAAA
1 -CCCGAAA
6374154 CTCCGAACA
1 C-CCGAA-A
6374163 CCCGAAA
1 CCCGAAA
*
6374170 ACCGAAA
1 CCCGAAA
6374177 CCCGAAA
1 CCCGAAA
6374184 -CCGAAA
1 CCCGAAA
*
6374190 -CCAAAA
1 CCCGAAA
6374196 CCCGAAAA
1 CCCG-AAA
6374204 CCCGAAA
1 CCCGAAA
6374211 CCCGGGAGAAA
1 CCC----GAAA
6374222 CCCG-AA
1 CCCGAAA
6374228 CACCGAAAA
1 C-CCG-AAA
*
6374237 CCCGATA
1 CCCGAAA
*
6374244 CTACGAAAA
1 C-CCG-AAA
*
6374253 GCCGAATA
1 CCCGAA-A
6374261 CCCG-AA
1 CCCGAAA
6374267 CCCGAATA
1 CCCGAA-A
6374275 CCCGAAA
1 CCCGAAA
*
6374282 ACCGAAA
1 CCCGAAA
*
6374289 CTCAGAAGAAA
1 C-C---CGAAA
6374300 CCCGAAA
1 CCCGAAA
6374307 CCCG-AA
1 CCCGAAA
*
6374313 -CCTAAA
1 CCCGAAA
6374319 CCCGAAA
1 CCCGAAA
6374326 TCCCGTAAAA
1 -CCCG--AAA
6374336 CCCGAAA
1 CCCGAAA
6374343 CCCGAAA
1 CCCGAAA
6374350 CCCGAAA
1 CCCGAAA
6374357 CCCGAAA
1 CCCGAAA
*
6374364 ACCGAAA
1 CCCGAAA
*
6374371 CCCAAAAA
1 CCC-GAAA
6374379 CCCGAAA
1 CCCGAAA
*
6374386 CCCAATAAA
1 CCC--GAAA
6374395 CCC--AA
1 CCCGAAA
6374400 CCC-AAA
1 CCCGAAA
*
6374406 ACCGAAA
1 CCCGAAA
6374413 CCCGAAAAA
1 CCCG--AAA
6374422 CCCGATAA
1 CCCGA-AA
6374430 CCCGCGAAA
1 -CC-CGAAA
6374439 CCCG-AA
1 CCCGAAA
6374445 CCCGTAAGA
1 CCCG-AA-A
6374454 -CCGTAAA
1 CCCG-AAA
6374461 -CCGAAAA
1 CCCG-AAA
6374468 CCCGAAA
1 CCCGAAA
*
6374475 CCGGAAA
1 CCCGAAA
6374482 CCCGAAA
1 CCCGAAA
*
6374489 CACGAAA
1 CCCGAAA
6374496 -CCGAAA
1 CCCGAAA
*
6374502 CCCGATA
1 CCCGAAA
6374509 CCCGAAA
1 CCCGAAA
*
6374516 ACCGAAA
1 CCCGAAA
6374523 CTCCGAAA
1 C-CCGAAA
6374531 CCCGAAATA
1 CCCG-AA-A
6374540 TCCCGAAA
1 -CCCGAAA
6374548 CCTCGAAA
1 CC-CGAAA
6374556 CCCGAATA
1 CCCGAA-A
6374564 CCCGAAA
1 CCCGAAA
6374571 CCCGGATAA
1 CCC-GA-AA
6374580 -CCG-AA
1 CCCGAAA
6374585 CCTCGAAA
1 CC-CGAAA
*
6374593 CCCG-AC
1 CCCGAAA
*
6374599 CCCGCAA
1 CCCGAAA
6374606 CCCGAAA
1 CCCGAAA
6374613 CCCGAAA
1 CCCGAAA
6374620 CCCCGAAA
1 -CCCGAAA
6374628 CCCGAAA
1 CCCGAAA
6374635 CCCGAAA
1 CCCGAAA
6374642 CCCGAAA
1 CCCGAAA
6374649 TCTCC-AAA
1 -C-CCGAAA
6374657 CCCGAAA
1 CCCGAAA
6374664 TCCCTGAGAATAA
1 -CCC---G-A-AA
6374677 CGCCGGAAA
1 C-CC-GAAA
*
6374686 CCCGGAA
1 CCCGAAA
6374693 CCCGAAA
1 CCCGAAA
6374700 CCCGAAA
1 CCCGAAA
*
6374707 CCCGCATGAT
1 CCCG-A--AA
*
6374717 CTCGAAA
1 CCCGAAA
6374724 CCTCGTGGAAA
1 CC-C---GAAA
6374735 CCCTGAAA
1 CCC-GAAA
6374743 CCCGAAA
1 CCCGAAA
*
6374750 CGCGAAA
1 CCCGAAA
*
6374757 CTCCGCAA
1 C-CCGAAA
6374765 CCCGAAA
1 CCCGAAA
* *
6374772 CCCCGCAC
1 -CCCGAAA
6374780 CCTCGCAAA
1 CC-CG-AAA
6374789 -CCGAATAA
1 CCCG-A-AA
6374797 CCCGAATA
1 CCCGAA-A
6374805 CCCGAAA
1 CCCGAAA
6374812 CCCGAAA
1 CCCGAAA
6374819 TCCCGAAA
1 -CCCGAAA
6374827 CCCGAAA
1 CCCGAAA
6374834 CCCAGAAATA
1 CCC-G-AA-A
6374844 CCCGTAAA
1 CCCG-AAA
6374852 CCCGAAA
1 CCCGAAA
6374859 CCCTAGAAAA
1 CCC--G-AAA
*
6374869 CCGGGTAAA
1 CC-CG-AAA
**
6374878 CCCTGACT
1 CCC-GAAA
*
6374886 CACGAAA
1 CCCGAAA
* *
6374893 ACCGCAA
1 CCCGAAA
6374900 CCCGAAA
1 CCCGAAA
6374907 CCCCGAAGA
1 -CCCGAA-A
6374916 CCCGAAA
1 CCCGAAA
6374923 CCCGAAA
1 CCCGAAA
*
6374930 CCCGCAA
1 CCCGAAA
6374937 CCCTGAAA
1 CCC-GAAA
6374945 CCCGAAA
1 CCCGAAA
6374952 TCCCGAAA
1 -CCCGAAA
6374960 CCCGAAA
1 CCCGAAA
6374967 CCC-ATAA
1 CCCGA-AA
6374974 CCCGAAA
1 CCCGAAA
6374981 -CCGAAA
1 CCCGAAA
6374987 -CCGAAA
1 CCCGAAA
6374993 CCCGAAA
1 CCCGAAA
*
6375000 CCCGGAA
1 CCCGAAA
6375007 CCCG-AA
1 CCCGAAA
6375013 CCCGAAA
1 CCCGAAA
6375020 CCCGAAA
1 CCCGAAA
6375027 CCCTGTGAAA
1 CCC---GAAA
6375037 CCCGAAA
1 CCCGAAA
**
6375044 CCCTCAA
1 CCCGAAA
**
6375051 CCTTAGAA
1 CCCGA-AA
6375059 CCCG-AA
1 CCCGAAA
6375065 CCCTGAAA
1 CCC-GAAA
6375073 CCCG-AA
1 CCCGAAA
6375079 -CCGAAA
1 CCCGAAA
6375085 CCCGAAA
1 CCCGAAA
*
6375092 CCCGACA
1 CCCGAAA
6375099 CCCGAAA
1 CCCGAAA
6375106 CCCGAAA
1 CCCGAAA
*
6375113 -TCGAATA
1 CCCGAA-A
6375120 CCCGAAAA
1 CCCG-AAA
**
6375128 CTCCGCCA
1 C-CCGAAA
*
6375136 CCGGCAAA
1 CCCG-AAA
6375144 -CCGAAA
1 CCCGAAA
*
6375150 CTCGAAAA
1 CCCG-AAA
6375158 CCCGAAA
1 CCCGAAA
6375165 CCCTGGAAAA
1 CCC--G-AAA
6375175 CCCGAAA
1 CCCGAAA
*
6375182 CCCGTAA
1 CCCGAAA
6375189 CCCGCAAA
1 CCCG-AAA
6375197 TCTCCGAAAA
1 -C-CCG-AAA
6375207 CCCGAAA
1 CCCGAAA
6375214 CCCGAAAA
1 CCCG-AAA
6375222 CCTCGAGAAA
1 CC-C--GAAA
6375232 CCCGAAA
1 CCCGAAA
6375239 CCCTGACGAAGA
1 -CC---CGAA-A
6375251 CCCTGGATAAA
1 CCC--G--AAA
6375262 CCCGGATAA
1 CCC-GA-AA
6375271 CTCCGAAA
1 C-CCGAAA
6375279 CCCGTGTAAA
1 CCC--G-AAA
6375289 CCCGGGAAA
1 CCC--GAAA
6375298 CCCGAAA
1 CCCGAAA
6375305 CCCCGAAA
1 -CCCGAAA
6375313 CCCGAAAA
1 CCCG-AAA
6375321 CCCGAAA
1 CCCGAAA
6375328 CCTCG-AA
1 CC-CGAAA
6375335 CCCGTAAAA
1 CCCG--AAA
6375344 CCTACGAAA
1 CC--CGAAA
6375353 CCCGTGAGAA
1 CCC--GA-AA
*
6375363 CTCTGAAA
1 C-CCGAAA
*
6375371 GCCGAAA
1 CCCGAAA
*
6375378 TCCGAAA
1 CCCGAAA
*
6375385 CCCGTAA
1 CCCGAAA
*
6375392 CCCGACA
1 CCCGAAA
6375399 -CCGAAA
1 CCCGAAA
6375405 CCCGGAAA
1 CCC-GAAA
*
6375413 TCCCGCAA
1 -CCCGAAA
6375421 -CCGAATA
1 CCCGAA-A
*
6375428 CCCGGTGAA
1 CCC-G-AAA
6375437 CGCCGAAA
1 C-CCGAAA
*
6375445 CCTTGGAAA
1 CC--CGAAA
6375454 TCCCTGCGGAAA
1 --CC--C-GAAA
6375466 CTTCGCTTGAAA
1 C--C-C--GAAA
6375478 CCCGAAA
1 CCCGAAA
*
6375485 CCCGCAA
1 CCCGAAA
6375492 CCCGAAA
1 CCCGAAA
*
6375499 CCCGAAC
1 CCCGAAA
6375506 CCCGAATA
1 CCCGAA-A
*
6375514 CGCGTAATA
1 CCCG-AA-A
6375523 CCCGAAA
1 CCCGAAA
6375530 -CCGAAGTA
1 CCCGAA--A
*
6375538 CTTTCGAAA
1 C--CCGAAA
6375547 CCGCGGAAAA
1 CC-C-G-AAA
*
6375557 CCCCAAA
1 CCCGAAA
6375564 GCCTCTGAAA
1 -CC-C-GAAA
6375574 CTCCTGCGTAAA
1 --CC--CG-AAA
6375586 TCCCGAAA
1 -CCCGAAA
*
6375594 CCTCTAAA
1 CC-CGAAA
6375602 CCGTCGAAA
1 CC--CGAAA
6375611 -CCGAAAA
1 CCCG-AAA
* *
6375618 CCGGAAT
1 CCCGAAA
6375625 CCCGAAA
1 CCCGAAA
6375632 CCCGAATTA
1 CCCGAA--A
6375641 CCCGAAA
1 CCCGAAA
6375648 TCCCGAAA
1 -CCCGAAA
6375656 CCCGATAA
1 CCCGA-AA
*
6375664 --AGAAAA
1 CCCG-AAA
6375670 CCCG-AA
1 CCCGAAA
6375676 CCCG-AA
1 CCCGAAA
6375682 CCCTGAAA
1 CCC-GAAA
6375690 CCCGAAA
1 CCCGAAA
6375697 CCCGAAA
1 CCCGAAA
*
6375704 TTCCCGATA
1 --CCCGAAA
6375713 CCCGAAAA
1 CCCG-AAA
6375721 CCCGAGAA
1 CCCGA-AA
6375729 CCCGAAA
1 CCCGAAA
*
6375736 ACCGAAA
1 CCCGAAA
6375743 -CCGAAAA
1 CCCG-AAA
*
6375750 ACCGAAAA
1 CCCG-AAA
6375758 CCCGAAA
1 CCCGAAA
6375765 CCCGAAA
1 CCCGAAA
6375772 CCCCGAAA
1 -CCCGAAA
6375780 CCCGTATAA
1 CCCG-A-AA
6375789 CCCGCAACGA
1 CCCG-AA--A
*
6375799 ACCGATAAA
1 CCCG--AAA
6375808 CCCGAAA
1 CCCGAAA
*
6375815 CACGGAAAA
1 C-CCG-AAA
6375824 CCCGAATAAA
1 CCCG---AAA
*
6375834 ACCGAAA
1 CCCGAAA
*
6375841 -CTGAAA
1 CCCGAAA
6375847 CCCGTAATA
1 CCCG-AA-A
6375856 -CCGAAA
1 CCCGAAA
*
6375862 GCCGAAAAA
1 CCCG--AAA
*
6375871 ACCGAAAA
1 CCCG-AAA
*
6375879 CCCGGACCAT
1 CCC-GA--AA
*
6375889 CCCGGAA
1 CCCGAAA
6375896 CCTCTGGAAA
1 CC-C--GAAA
6375906 CCCCGGAAA
1 -CCC-GAAA
6375915 CCCGAATAA
1 CCCG-A-AA
6375924 CCTCTGGAAA
1 CC-C--GAAA
6375934 CCCGAAA
1 CCCGAAA
6375941 CCCTGGGAAA
1 CCC---GAAA
6375951 CCCGCAACA
1 CCCG-AA-A
6375960 CCCGTAGAAA
1 CCC---GAAA
*
6375970 CCGGAAA
1 CCCGAAA
*
6375977 CCCGATA
1 CCCGAAA
6375984 -CCGAAA
1 CCCGAAA
6375990 CCTCTGAAA
1 CC-C-GAAA
6375999 CCCGAAA
1 CCCGAAA
*
6376006 CACGAAAA
1 CCCG-AAA
*
6376014 CCCCCGGGCAAC
1 --CCC--G-AAA
*
6376026 CCCTTAAA
1 CCC-GAAA
*
6376034 CCCCCATAA
1 -CCCGA-AA
6376043 CCCGAAAAA
1 CCCG--AAA
6376052 CCCGAGAA
1 CCCGA-AA
6376060 TCTCCGGACAAA
1 -C-CC-G--AAA
6376072 CCCGAAA
1 CCCGAAA
**
6376079 CCCGCCA
1 CCCGAAA
6376086 CCCGAAA
1 CCCGAAA
6376093 CCCGAAA
1 CCCGAAA
6376100 CCCGAAA
1 CCCGAAA
6376107 CCCGAAA
1 CCCGAAA
6376114 CCCGAAA
1 CCCGAAA
*
6376121 CCCGAAT
1 CCCGAAA
*
6376128 CCCGAAC
1 CCCGAAA
*
6376135 CCCAAAAA
1 CCC-GAAA
6376143 CCCTGGAAA
1 CCC--GAAA
*
6376152 -CCGAAT
1 CCCGAAA
*
6376158 CCCGACA
1 CCCGAAA
*
6376165 CCCGAAC
1 CCCGAAA
*
6376172 CCCGACA
1 CCCGAAA
6376179 CCCGACAA
1 CCCGA-AA
6376187 CCCGGAAA
1 CCC-GAAA
6376195 CCCGATAA
1 CCCGA-AA
6376203 CCCGAAA
1 CCCGAAA
*
6376210 CCCCGCAA
1 -CCCGAAA
6376218 CCCGGAAGA
1 CCC-GAA-A
6376227 -CCGAAA
1 CCCGAAA
6376233 CCCTGAAA
1 CCC-GAAA
6376241 CCCGAAA
1 CCCGAAA
*
6376248 CTCCGAAC
1 C-CCGAAA
6376256 CCTCGAAA
1 CC-CGAAA
*
6376264 CCCGATAT
1 CCCGA-AA
6376272 CCCTGAAA
1 CCC-GAAA
*
6376280 TCCGATTACA
1 CCCGA--A-A
6376290 CCC--AA
1 CCCGAAA
6376295 CCCGAAA
1 CCCGAAA
*
6376302 CCAGAAA
1 CCCGAAA
6376309 CCC-AAA
1 CCCGAAA
6376315 CCGCGGAAA
1 CC-C-GAAA
* *
6376324 CCCTACA
1 CCCGAAA
6376331 CCCGAAA
1 CCCGAAA
6376338 -CCGAAAA
1 CCCG-AAA
6376345 CCCG-AA
1 CCCGAAA
6376351 -CCGAAA
1 CCCGAAA
6376357 CCCTAGGGGAAA
1 CCC-----GAAA
6376369 CCTCGAAA
1 CC-CGAAA
*
6376377 CCGGAAA
1 CCCGAAA
6376384 CCCGAAA
1 CCCGAAA
*
6376391 CTCCGAAT
1 C-CCGAAA
6376399 CCCGAAA
1 CCCGAAA
6376406 -CCG-AA
1 CCCGAAA
6376411 CCCGAAA
1 CCCGAAA
6376418 CCCGAACA
1 CCCGAA-A
6376426 CCCGGAAA
1 CCC-GAAA
6376434 CCCTGAAA
1 CCC-GAAA
*
6376442 CCCGCACA
1 CCCG-AAA
*
6376450 CCCGACA
1 CCCGAAA
*
6376457 -CCGACA
1 CCCGAAA
6376463 CCCGAAAA
1 CCCG-AAA
6376471 CCCGAAAA
1 CCCG-AAA
6376479 CCCGAAA
1 CCCGAAA
6376486 CCCGAAAA
1 CCCG-AAA
6376494 CCCG-AA
1 CCCGAAA
*
6376500 CCCGAAC
1 CCCGAAA
6376507 CCCGAAA
1 CCCGAAA
6376514 -CCGTAAA
1 CCCG-AAA
6376521 CCCGAAA
1 CCCGAAA
6376528 CCCGAAA
1 CCCGAAA
6376535 CCCGATAA
1 CCCGA-AA
*
6376543 TACCG-AA
1 -CCCGAAA
*
6376550 CCTG-AA
1 CCCGAAA
6376556 CCC-AAA
1 CCCGAAA
6376562 TCCCGTGAAA
1 -CCC--GAAA
6376572 CCCGAATA
1 CCCGAA-A
6376580 CCTCGGACTAA
1 CC-C-GA--AA
6376591 CCCGGAAA
1 CCC-GAAA
6376599 CCCGATAA
1 CCCGA-AA
6376607 CCCGAAA
1 CCCGAAA
6376614 CCCGAATA
1 CCCGAA-A
6376622 CCCGAAA
1 CCCGAAA
6376629 CCCTGAAA
1 CCC-GAAA
6376637 CCCG-AA
1 CCCGAAA
6376643 CTCTCGAAAA
1 C-C-CG-AAA
6376653 CCCGAAA
1 CCCGAAA
6376660 TCCCTGAAA
1 -CCC-GAAA
6376669 CCCGATAA
1 CCCGA-AA
*
6376677 CCAG-AA
1 CCCGAAA
6376683 CCCGAGATA
1 CCCGA-A-A
6376692 CCCGAAA
1 CCCGAAA
6376699 CCCGAAA
1 CCCGAAA
6376706 CCCGGAAA
1 CCC-GAAA
*
6376714 -CCGCAAC
1 CCCG-AAA
6376721 CCCGAAA
1 CCCGAAA
*
6376728 CCCGCAA
1 CCCGAAA
6376735 CCCGAAA
1 CCCGAAA
6376742 CCTCGAATA
1 CC-CGAA-A
6376751 CCCGGATATA
1 CCC-GA-A-A
6376761 TCACCGGAAA
1 -C-CC-GAAA
*
6376771 CCCGCAA
1 CCCGAAA
*
6376778 CCCGTACA
1 CCCG-AAA
*
6376786 CCCGGAA
1 CCCGAAA
*
6376793 CCCG-AC
1 CCCGAAA
*
6376799 CCCTGTAA
1 CCC-GAAA
*
6376807 CCCGGAA
1 CCCGAAA
6376814 CCCGCAAA
1 CCCG-AAA
6376822 CTCCGAAA
1 C-CCGAAA
6376830 CCCG-AA
1 CCCGAAA
6376836 CCCGAATA
1 CCCGAA-A
6376844 CCCGAAA
1 CCCGAAA
*
6376851 CTCGAAA
1 CCCGAAA
*
6376858 CCCGAAT
1 CCCGAAA
6376865 CCCTGAAA
1 CCC-GAAA
*
6376873 CCCGATA
1 CCCGAAA
6376880 -CCGAAA
1 CCCGAAA
6376886 CCCTGAAAA
1 CCC-G-AAA
6376895 CCCGTAAAAAA
1 CCCG----AAA
6376906 CCCCGGAAATA
1 -CCC-G-AA-A
6376917 CCCGAAA
1 CCCGAAA
6376924 CCCGAAA
1 CCCGAAA
6376931 CCCGAAA
1 CCCGAAA
6376938 CCCGAAA
1 CCCGAAA
6376945 CCCGAAAA
1 CCCG-AAA
6376953 CCCGAAA
1 CCCGAAA
6376960 TCCCGAAA
1 -CCCGAAA
6376968 -CCGAAA
1 CCCGAAA
6376974 CCC-AAA
1 CCCGAAA
6376980 CCCGAAAA
1 CCCG-AAA
6376988 CCCGAAAA
1 CCCG-AAA
6376996 CCCGAATA
1 CCCGAA-A
**
6377004 CCCTCAA
1 CCCGAAA
*
6377011 CCCTAGATA
1 CCC--GAAA
6377020 CCCGAAAA
1 CCCG-AAA
6377028 CCCGAAA
1 CCCGAAA
6377035 CCCGAAA
1 CCCGAAA
*
6377042 CCGGAAA
1 CCCGAAA
6377049 CCCTGAGAAA
1 CCC---GAAA
6377059 CCCGAAA
1 CCCGAAA
6377066 CCCGAAA
1 CCCGAAA
*
6377073 ACCGAACAA
1 CCCG-A-AA
6377082 CCACGAAA
1 CC-CGAAA
* *
6377090 CCCTTATA
1 CCC-GAAA
*
6377098 CCTAGAAA
1 CC-CGAAA
*
6377106 CCCGACA
1 CCCGAAA
6377113 CCCGAAA
1 CCCGAAA
6377120 CCCGAAA
1 CCCGAAA
6377127 CCCGAAA
1 CCCGAAA
*
6377134 CCCTAAAA
1 CCC-GAAA
*
6377142 CCGGAAA
1 CCCGAAA
6377149 CCCGAATA
1 CCCGAA-A
* *
6377157 CCCTACA
1 CCCGAAA
6377164 CCCG-AA
1 CCCGAAA
*
6377170 CCCTAAA
1 CCCGAAA
6377177 -CCGAAAA
1 CCCG-AAA
*
6377184 CTCCTAAA
1 C-CCGAAA
**
6377192 CCCTCAA
1 CCCGAAA
*
6377199 CCCTAAA
1 CCCGAAA
*
6377206 CCCTAAA
1 CCCGAAA
*
6377213 -CCTAAA
1 CCCGAAA
*
6377219 CCATCTAAA
1 CC--CGAAA
* *
6377228 ACCTAAA
1 CCCGAAA
6377235 CCCGAAA
1 CCCGAAA
6377242 CCCCGAAA
1 -CCCGAAA
*
6377250 CTCCTAAA
1 C-CCGAAA
6377258 -CCGAATA
1 CCCGAA-A
*
6377265 CCCTAAAA
1 CCC-GAAA
*
6377273 CCCTAAA
1 CCCGAAA
6377280 CCC
1 CCC
6377283 CGCTAAAACC
Statistics
Matches: 3372, Mismatches: 350, Indels: 1024
0.71 0.07 0.22
Matches are distributed among these distances:
5 27 0.01
6 331 0.10
7 1408 0.42
8 888 0.26
9 379 0.11
10 202 0.06
11 81 0.02
12 48 0.01
13 8 0.00
ACGTcount: A:0.40, C:0.39, G:0.15, T:0.06
Consensus pattern (7 bp):
CCCGAAA
Found at i:6373369 original size:24 final size:24
Alignment explanation
Indices: 6373046--6374648 Score: 177
Period size: 22 Copynumber: 70.1 Consensus size: 24
6373036 CAACGCCCCG
6373046 AAACCC-GAAACCCG-AAACCCCG
1 AAACCCAGAAACCCGAAAACCCCG
6373068 AAACCC-GAAACCGCGAAAA--CCG
1 AAACCCAGAAACC-CGAAAACCCCG
*
6373090 AATACCC-GAAACCCGGGAAA-CCCG
1 AA-ACCCAGAAACCC-GAAAACCCCG
* * *
6373114 -AACCCGTGCAACCCG-AAACCCAGG
1 AAACCC-AGAAACCCGAAAACCC-CG
*
6373138 AAACCC-GAAACCCGTAAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
* *
6373160 AGACCC-GAATACCCG-AAA-CCGG
1 AAACCCAGAA-ACCCGAAAACCCCG
*
6373182 AAAACCCCGAACAACCCG-AAA-CCCG
1 -AAACCCAG-A-AACCCGAAAACCCCG
*
6373207 AAACCC-GAAACCCGCAAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
6373229 AAACCC--AAACCCG-AAA--CCG
1 AAACCCAGAAACCCGAAAACCCCG
6373248 AAACCC-GAAACCCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
6373269 AAA-CC-G-AACCC--AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6373287 AAACCC-GAAACCCGAGAACCCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6373310 AAA-CC-GAAACCTC----CCCCCGG
1 AAACCCAGAAACC-CGAAAACCCC-G
6373330 AAACCC-GAATCAACCCGAAAACCCCG
1 AAACCCAG-A--AACCCGAAAACCCCG
* * ***
6373356 AAATCCAGAAACCCGAATACCGAA
1 AAACCCAGAAACCCGAAAACCCCG
* *
6373380 AAACCCCGAAACCCGGAAACCCCG
1 AAACCCAGAAACCCGAAAACCCCG
* *
6373404 AAACCCTGGAAACCCG-AAACCCGG
1 AAACCC-AGAAACCCGAAAACCCCG
* **
6373428 TAAACCCGGAAACCTCCG-GTA-CCCG
1 -AAACCCAGAAA-C-CCGAAAACCCCG
*
6373453 ATAATCCTCGTGAAAGCCC--AAA-CCCG
1 A-AA-CC-C-AGAAA-CCCGAAAACCCCG
**** *
6373479 -AACCCTA-AAAAAATAAAACCGACG
1 AAACCC-AGAAACCCGAAAACC-CCG
* * *
6373503 ACAACCC-GGAA--TGATTAAACCCTG
1 A-AACCCAGAAACCCGA--AAACCCCG
*
6373527 -ATCCC-GAAA-CCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6373546 TAAACCC-G-AACCCGGGAAA-CCCG
1 -AAACCCAGAAACCC-GAAAACCCCG
6373569 AAA-CC-GAAACCCGAAAA--CCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6373589 AAAACCAGAAACCCGGAAAACCCCGAG
1 AAACCCAGAAACCC-GAAAACCCC--G
* * *
6373616 AAACACGGAAACGCCCG-CAACCCCG
1 AAACCCAGAAA--CCCGAAAACCCCG
*
6373641 AAACCCCGATAACCCG-AAA-CCCG
1 AAACCCAGA-AACCCGAAAACCCCG
* *
6373664 TAACACCC-TAAACCTCGCGAAA-CCCG
1 -AA-ACCCAGAAACC-CG-AAAACCCCG
*
6373690 ACACCGC-GAAACCCGAAAA-CCCG
1 AAACC-CAGAAACCCGAAAACCCCG
*
6373713 CAACCC-GAAAACCCG-AAA-CCCG
1 AAACCCAG-AAACCCGAAAACCCCG
* * * *
6373735 ACACCGCGGAAAACCG--CA-CCCG
1 AAACC-CAGAAACCCGAAAACCCCG
* *
6373757 AAACCGAGAAA-CAG-AAACCCGTTCG
1 AAACCCAGAAACCCGAAAACCC---CG
* * *
6373782 TAAGACCC-GAAACCCGATAATCCCA
1 -AA-ACCCAGAAACCCGAAAACCCCG
6373807 AAACCC-GAAACCC-AAGAA-CCCG
1 AAACCCAGAAACCCGAA-AACCCCG
6373829 AAACCC-GAAACCCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6373850 AAACCC-GAAACCC--AAACCCAG
1 AAACCCAGAAACCCGAAAACCCCG
* *
6373871 TAAACCGAAAAACTTCCG-AAA-CCCG
1 -AAACCCAGAAAC--CCGAAAACCCCG
6373896 AAACCC-GATAACCCG-AAA--CCG
1 AAACCCAGA-AACCCGAAAACCCCG
* *
6373917 AAATCCGTC-GTATCTCCGAAAA--CCG
1 AAA-CC--CAGAAAC-CCGAAAACCCCG
* *
6373942 AAACCC-GAAAAACCG--AACCCTG
1 AAACCCAG-AAACCCGAAAACCCCG
* ** *
6373964 AAACCCCGAAACCCGGTAACCTCGG
1 AAACCCAGAAACCCGAAAACC-CCG
6373989 AAACCC-GAAACCCGAAAATCCCGCG
1 AAACCCAGAAACCCGAAAA-CCC-CG
*
6374014 AGATACACC-GCGAACCCG-AAA--CCG
1 A-A-AC-CCAG-AAACCCGAAAACCCCG
6374038 AAACCC-GAAA-CCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
* * *
6374058 AAAACC-GAAAAACCGAAACCCGAACCG
1 AAACCCAG-AAACCCGAAAACC---CCG
6374085 AAACCC-GAAACCCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
* *
6374106 AAAAACC-GAAA-CCGAATA-CCCG
1 -AAACCCAGAAACCCGAAAACCCCG
*
6374128 AAACCC-GAAACCCCG-AAACCCCC
1 AAACCCAGAAA-CCCGAAAACCCCG
6374151 AAACTCC-GAACACCCGAAAA--CCG
1 AAAC-CCAGAA-ACCCGAAAACCCCG
*
6374174 AAACCC-GAAA-CCG-AAA--CCA
1 AAACCCAGAAACCCGAAAACCCCG
*
6374193 AAACCC-GAAAACCCG-AAACCCGGGAG
1 AAACCCAG-AAACCCGAAAACCC---CG
6374219 AAACCC-G-AACACCGAAAA-CCCG
1 AAACCCAGAAAC-CCGAAAACCCCG
* * * *
6374241 ATA-CTACGAAAAGCCGAATA-CCCG
1 AAACCCA-G-AAACCCGAAAACCCCG
6374265 -AACCC-GAATACCCGAAAA--CCG
1 AAACCCAGAA-ACCCGAAAACCCCG
* * *
6374286 AAACTCAGAAGAAACCCGAAACCCGAACCT
1 AAAC-C--CAGAAACCCGAAAACC---CCG
* *
6374316 AAACCC-GAAATCCCGTAAAACCCG
1 AAACCCAGAAA-CCCGAAAACCCCG
6374340 AAACCC-GAAACCCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
* *
6374361 AAAACC-GAAACCC-AAAAACCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6374383 AAACCCAATAAACCC---AA-CCC-
1 AAACCC-AGAAACCCGAAAACCCCG
* *
6374403 AAAACC-GAAACCCGAAAAACCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6374426 ATAACCCGCGAAACCCG--AA-CCCG
1 A-AACCC-AGAAACCCGAAAACCCCG
6374449 TAAGA-CC-GTAAA-CCGAAAA-CCCG
1 -AA-ACCCAG-AAACCCGAAAACCCCG
* *
6374472 AAA-CCGGAAACCCG-AAA-CACG
1 AAACCCAGAAACCCGAAAACCCCG
*
6374493 AAA-CC-GAAACCCG-ATA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
*
6374513 AAAACC-GAAACTCCG-AAA-CCCG
1 AAACCCAGAAAC-CCGAAAACCCCG
6374535 AAATATCCC-GAAACCTCG-AAA-CCCG
1 -AA-A-CCCAGAAACC-CGAAAACCCCG
*
6374560 AATACCC-GAAACCCGGATAA--CCG
1 AA-ACCCAGAAACCC-GAAAACCCCG
6374583 -AACCTC-GAAACCCG---ACCCCG
1 AAACC-CAGAAACCCGAAAACCCCG
*
6374603 CAACCC-GAAACCCG-AAACCCCG
1 AAACCCAGAAACCCGAAAACCCCG
6374625 AAACCC-GAAACCCG-AAA-CCCG
1 AAACCCAGAAACCCGAAAACCCCG
6374646 AAA
1 AAA
6374649 TCTCCAAACC
Statistics
Matches: 1250, Mismatches: 142, Indels: 379
0.71 0.08 0.21
Matches are distributed among these distances:
18 17 0.01
19 42 0.03
20 93 0.07
21 175 0.14
22 273 0.22
23 176 0.14
24 190 0.15
25 132 0.11
26 74 0.06
27 46 0.04
28 16 0.01
29 10 0.01
30 6 0.00
ACGTcount: A:0.42, C:0.39, G:0.15, T:0.04
Consensus pattern (24 bp):
AAACCCAGAAACCCGAAAACCCCG
Found at i:6373390 original size:32 final size:33
Alignment explanation
Indices: 6373125--6373314 Score: 88
Period size: 32 Copynumber: 6.3 Consensus size: 33
6373115 ACCCGTGCAA
*
6373125 CCCGAAACCCAGGAAACCCG-A-AACCCGTAAA-
1 CCCGAAACCCA-GAAACCCGAATAACCCGAAAAC
* *
6373156 CCCGAGACCC-GAATACCCG-A-AACCGGAAAAC
1 CCCGAAACCCAGAA-ACCCGAATAACCCGAAAAC
6373187 CCCGAACAACCC-GAAACCCG-A-AACCCG-AAA-
1 CCCG-A-AACCCAGAAACCCGAATAACCCGAAAAC
6373217 CCCGCAAACCC-GAAACCC--A-AACCCG-AAA-
1 CCCG-AAACCCAGAAACCCGAATAACCCGAAAAC
6373245 -CCGAAACCC-GAAACCCG-A-AACCCG-AAAC
1 CCCGAAACCCAGAAACCCGAATAACCCGAAAAC
* *
6373273 CGAACCCAAACCC-GAAACCCG-A-AACCCGAGAAC
1 C---CCGAAACCCAGAAACCCGAATAACCCGAAAAC
6373306 CCCGAAACC
1 CCCGAAACC
6373315 GAAACCTCCC
Statistics
Matches: 139, Mismatches: 9, Indels: 23
0.81 0.05 0.13
Matches are distributed among these distances:
26 13 0.09
27 13 0.09
28 10 0.07
29 15 0.11
30 26 0.19
31 16 0.12
32 35 0.25
33 11 0.08
ACGTcount: A:0.42, C:0.43, G:0.15, T:0.01
Consensus pattern (33 bp):
CCCGAAACCCAGAAACCCGAATAACCCGAAAAC
Found at i:6373566 original size:43 final size:44
Alignment explanation
Indices: 6373530--6374663 Score: 216
Period size: 43 Copynumber: 25.3 Consensus size: 44
6373520 AACCCTGATC
* * * *
6373530 CCGAAA-CCGAAACCCGTAAACCCG-AACCCGGGAAACCCGAAA
1 CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
6373572 CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCCG--A
1 CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAA-CCCGAAA
* * * * * * *
6373615 --GAAACACGGAAACGCCCGCAACCCCGAAACCCCGATAACCCGAAA
1 CCGAAAC-CCGAAA--ACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * * * *
6373660 CCCGTAACACCCTAAACCTCGCGAAACCCGACA-CCGCG-AAACCCGAAAA
1 -CCG-AA-ACCCGAAAAC-CG-AAAACCAGAAACCCG-GAAAACCCG-AAA
* * * * *
6373709 CCCGCAACCCGAAAACCCG-AAACCCGACACCGCGGAAAA-CCGCAC
1 -CCGAAACCCGAAAA-CCGAAAACCAGAAACC-CGGAAAACCCGAAA
* * *
6373754 CCGAAA-CCGAGAAACAGAAACCCGTTCGTAAGACCC-G-AAACCCGATAA
1 CCGAAACCCGA-AAACCGAAAACC---AG-AA-ACCCGGAAAACCCGA-AA
* * *
6373802 TCCCAAAACCCG-AAACCCAAGAACCCGAAACCC-G-AAACCCGAAA
1 --CCGAAACCCGAAAACCGAA-AACCAGAAACCCGGAAAACCCGAAA
* * *
6373846 CCCGAAACCCG-AAACCCAAACCCAGTAAA-CCGAAAAACTTCCGAAA
1 -CCGAAACCCGAAAACCGAAAACCAG-AAACCCGGAAAAC--CCGAAA
* * * *
6373892 CCCGAAACCCGATAACCCG-AAACC-GAAATCCGTCG-TATCTCCGAAAA
1 -CCGAAACCCGA-AAACCGAAAACCAGAAACCCG--GAAAAC-CCG-AAA
* * * *
6373939 CCGAAACCCGAAAAACCG-AACCCTGAAACCCCG-AAACCCGGTAAC
1 CCGAAACCCG-AAAACCGAAAACCAGAAACCCGGAAAACCC-G-AAA
* *
6373984 CTCGGAAACCCGAAACCCGAAAATCCCGCGAGATACACCGCG--AACCCGAAA
1 C-C-GAAACCCGAAAACCGAAAA---C-C-AGAAAC-CCG-GAAAACCCGAAA
* * *
6374035 CCGAAACCCG-AAACCG-AAACCCGAAAACC-GAAAAACCGAAA
1 CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * *
6374076 CCCG-AA-CCGAAACCCG-AAACCCGAAACCC-GAAAAACCGAAA
1 -CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * * * *
6374117 CCGAATACCCGAAACCCGAAACCCCGAAACCCCCAAACTCCGAACACCCGAAAA
1 CCGAA-ACCCGAAAACCGAAAACCAGAAA----C---C-CGGAAAACCCG-AAA
6374171 CCGAAACCCG-AAACCG-AAACCA-AAACCC-GAAAACCCGAAA
1 CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * * * *
6374211 CCCGGGAGAAACCCGAACACCGAAAACCCGATACTAC-GAAAAGCCGAATA
1 -CC----GAAACCCGAAAACCGAAAACCAGAAAC-CCGGAAAACCCGAA-A
* * *
6374261 CCCG-AACCCGAATACCCGAAAACC-GAAACTC--AGAA---GAAA
1 -CCGAAACCCGAA-AACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * *
6374300 CCCGAAACCCG--AACC-TAAACCCGAAATCCCGTAAAACCCGAAA
1 -CCGAAACCCGAAAACCGAAAACCAGAAA-CCCGGAAAACCCGAAA
* *
6374343 CCCGAAACCCGAAACCCGAAAACC-GAAACCC-AAAAACCCGAAA
1 -CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
* * *
6374386 CCCAATAAACCC---AACCCAAAACC-GAAACCCGAAAAACCCGATAA
1 -CC--GAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGA-AA
* *
6374430 CCCGCGAAACCCG-AACCCGTAAGACC-GTAAA-CC-GAAAACCCGAAA
1 --C-CGAAACCCGAAAACCG-AAAACCAG-AAACCCGGAAAACCCGAAA
*
6374475 CCGGAAACCCG-AAACACG-AAACC-GAAACCC-G-ATACCCGAAAA
1 CC-GAAACCCGAAAAC-CGAAAACCAGAAACCCGGAAAACCCG-AAA
* *
6374517 CCGAAACTCCGAAACCCGAAATATCCCGAAACCTC-G-AAACCCGAATA
1 CCGAAAC-CCGAAAACCGAAA-A-CCAGAAACC-CGGAAAACCCGAA-A
* * * *
6374564 CCCGAAACCCGGATAACCG--AACCTCGAAACCC-G--ACCCCGCAAC
1 -CCGAAACCC-GAAAACCGAAAACC-AGAAACCCGGAAAACCCG-AAA
* *
6374607 CCGAAACCCGAAACCCCG-AAACCCGAAACCC-G-AAACCCGAAA
1 CCGAAACCCGAAA-ACCGAAAACCAGAAACCCGGAAAACCCGAAA
*
6374649 TCTCCAAACCCGAAA
1 -C-CGAAACCCGAAA
6374664 TCCCTGAGAA
Statistics
Matches: 853, Mismatches: 110, Indels: 256
0.70 0.09 0.21
Matches are distributed among these distances:
36 5 0.01
37 7 0.01
38 2 0.00
39 6 0.01
40 21 0.02
41 74 0.09
42 83 0.10
43 133 0.16
44 90 0.11
45 86 0.10
46 104 0.12
47 77 0.09
48 45 0.05
49 50 0.06
50 19 0.02
51 12 0.01
52 11 0.01
53 19 0.02
54 9 0.01
ACGTcount: A:0.42, C:0.39, G:0.15, T:0.04
Consensus pattern (44 bp):
CCGAAACCCGAAAACCGAAAACCAGAAACCCGGAAAACCCGAAA
Found at i:6375180 original size:25 final size:24
Alignment explanation
Indices: 6375147--6375241 Score: 104
Period size: 25 Copynumber: 3.9 Consensus size: 24
6375137 CGGCAAACCG
*
6375147 AAACTCGAAAACCCGAAACCCTGGA
1 AAACCCGAAAACCCGAAACCC-GGA
* *
6375172 AAACCCG-AAACCCGTAACCCGCA
1 AAACCCGAAAACCCGAAACCCGGA
*
6375195 AATCTCCGAAAACCCGAAACCC-GA
1 AAAC-CCGAAAACCCGAAACCCGGA
6375219 AAACCTCGAGAAACCCGAAACCC
1 AAACC-CGA-AAACCCGAAACCC
6375242 TGACGAAGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
23 6 0.10
24 22 0.37
25 31 0.53
ACGTcount: A:0.42, C:0.38, G:0.14, T:0.06
Consensus pattern (24 bp):
AAACCCGAAAACCCGAAACCCGGA
Found at i:6375182 original size:32 final size:33
Alignment explanation
Indices: 6375144--6375223 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
6375134 CACCGGCAAA
*
6375144 CCGAAACTCGAAAACCCG-AAA-C-CCTGGAAAAC
1 CCGAAACCCGAAAACCCGCAAATCTCC--GAAAAC
*
6375176 CCGAAACCCG-TAACCCGCAAATCTCCGAAAAC
1 CCGAAACCCGAAAACCCGCAAATCTCCGAAAAC
6375208 CCGAAACCCGAAAACC
1 CCGAAACCCGAAAACC
6375224 TCGAGAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 6 0.15
32 28 0.68
33 5 0.12
34 2 0.05
ACGTcount: A:0.41, C:0.39, G:0.14, T:0.06
Consensus pattern (33 bp):
CCGAAACCCGAAAACCCGCAAATCTCCGAAAAC
Found at i:6375925 original size:18 final size:19
Alignment explanation
Indices: 6375904--6375939 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6375894 AACCTCTGGA
6375904 AACC-CCGGAAACCCGAAT
1 AACCTCCGGAAACCCGAAT
*
6375922 AACCTCTGGAAACCCGAA
1 AACCTCCGGAAACCCGAA
6375940 ACCCTGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.36, G:0.17, T:0.08
Consensus pattern (19 bp):
AACCTCCGGAAACCCGAAT
Found at i:6376969 original size:73 final size:71
Alignment explanation
Indices: 6376070--6377136 Score: 223
Period size: 73 Copynumber: 14.6 Consensus size: 71
6376060 TCTCCGGACA
** *
6376070 AACCCGAAACCCGCCACCC-GAAACCCG-AAACCCGAAACCCGAAACCCGAAACCCGAATCCCG-
1 AACCCGAAACCCGAAACCCTGAAACCCGAAAACCCGAAACCCGAAACCCGAAA--C-AAACCCGA
* *
6376132 AA-CCCCAAA
63 AATACCC-GA
* * * *
6376141 AACCCTGGAAA-CCGAATCCC-GACACCCG-AACCCCGACACCCGACAACCCGGAAACCCGATAA
1 AACCC--GAAACCCGAAACCCTGAAACCCGAAAACCCGAAACCCGA-AACCC-GAAA--C-A-AA
* *
6376203 CCCGAAA-CCCCGC
58 CCCGAAATACCCGA
* *
6376216 AACCCGGAAGA-CCGAAACCCTGAAACCCG-AAACTCCGAACCCTCGAAACCCGATATCCCTGAA
1 AACCC-GAA-ACCCGAAACCCTGAAACCCGAAAAC-CCGAAACC-CGAAACCCGA-A--AC--AA
* * *
6376279 ATCCG-ATTACACC-C
57 ACCCGAAATAC-CCGA
* * * * *
6376293 AACCCGAAACCAGAAACCC--AAACCGCGGAAACCCTACACCCGAAA-CCGAAAACCCGAA-CCG
1 AACCCGAAACCCGAAACCCTGAAACC-CGAAAACCCGAAACCCGAAACCCG-AAA--CAAACCCG
***
6376354 AAACCCTAGGGGA
62 AAA---TACCCGA
* *
6376367 AACCTCGAAACCGGAAACCC-GAAACTCCG-AATCCCGAAA-CCG-AACCCGAAACCCGAACACC
1 AACC-CGAAACCCGAAACCCTGAAAC-CCGAAAACCCGAAACCCGAAACCCGAAA--C-AA-ACC
*
6376428 CGGAA-ACCCTGA
60 CGAAATACCC-GA
* * * *
6376440 AACCCGCACACCCGACA-CC-GACACCCGAAAACCCGAAAACCCGAAACCCGAAAACCCGAACCC
1 AACCCG-AAACCCGAAACCCTGAAACCCGAAAACCCG-AAACCCGAAACCCG-AAA--CAAACCC
*
6376503 G-AA-CCCCGA
61 GAAATACCCGA
*
6376512 AA-CCGTAAACCCGAAACCC-GAAACCCGATAATA-CCG-AACCTG-AACCC-AAATCCCGTGAA
1 AACCCG-AAACCCGAAACCCTGAAACCCGA-AA-ACCCGAAACCCGAAACCCGAAA---C---AA
6376571 ACCCG-AATACCTCGGA
57 ACCCGAAATACC-C-GA
* * *
6376587 CTAACCCGGAAACCCGATAACCC-GAAACCCGAATACCCGAAACCCTGAAACCCG-AAC--TCTC
1 --AACCC-GAAACCCGA-AACCCTGAAACCCGAAAACCCGAAACCC-GAAACCCGAAACAAACCC
6376648 GAAA-ACCCGA
61 GAAATACCCGA
* * *
6376658 AATCCCTGAAACCCGATAA-CCAG-AACCCGAGATACCCGAAACCCGAAACCCGGAAACCGCAAC
1 AA-CCC-GAAACCCGA-AACCCTGAAACCCGA-AAACCCGAAACCCGAAACCC-GAAA---CAAA
*
6376721 CCCG-AA-ACCCGC
58 CCCGAAATACCCGA
* * * * * *
6376733 AACCCGAAACCTCGAATACCCGGATATATCACCGGAAACCCGCAACCCGTACACCCGGAACCCGA
1 AACCCGAAACC-CGAA-ACCCTGA-A-A-C-CCGAAAACCCGAAACCCG-AAACCC-GAA-ACAA
* * *
6376798 CCCCTG-TA-ACCCGG
57 ACCC-GAAATACCCGA
* * * *
6376812 AACCCGCAAACTCCGAAACCC-G-AACCCGAATACCCGAAACTCGAAACCCGAATC---CCTG-A
1 AACCCG-AAAC-CCGAAACCCTGAAACCCGAAAACCCGAAACCCGAAACCCGAAACAAACCCGAA
6376871 A-ACCCGA
64 ATACCCGA
* *
6376878 TA-CCGAAACCCTGAAAACCCGTAAAAAACCCCGGAAATACCCGAAACCCGAAACCCGAAACCCG
1 AACCCGAAACCC-G-AAACCC-T--GAAA-CCC-GAAA-ACCCGAAACCCGAAACCCGAAA--C-
6376942 AAACCCGAAA-ACCCGA
55 AAACCCGAAATACCCGA
* *
6376958 AATCCCGAAA-CCGAAACCC--AAACCCGAAAACCCGAAAACCCGAATACCC---TC-AACCCTA
1 AA-CCCGAAACCCGAAACCCTGAAACCCGAAAACCCG-AAACCCGAA-ACCCGAAACAAACCCGA
*
6377016 GATACCCGAA
63 AATACCCG-A
* *
6377026 AACCCGAAACCCGAAA-CCGGAAACCCTGAGAAACCCGAAACCCGAAAACCG-AAC-AACCACG-
1 AACCCGAAACCCGAAACCCTGAAACCC-GA-AAACCCGAAACCCGAAACCCGAAACAAACC-CGA
*
6377087 AA-ACCCTTA
63 AATACCC-GA
* * *
6377096 TACCTAGAAACCCGACACCC-GAAACCCG-AAACCCGAAACCC
1 AACC-CGAAACCCGAAACCCTGAAACCCGAAAACCCGAAACCC
6377137 TAAAACCGGA
Statistics
Matches: 781, Mismatches: 96, Indels: 241
0.70 0.09 0.22
Matches are distributed among these distances:
63 2 0.00
64 5 0.01
65 9 0.01
66 15 0.02
67 16 0.02
68 26 0.03
69 30 0.04
70 61 0.08
71 72 0.09
72 88 0.11
73 104 0.13
74 61 0.08
75 72 0.09
76 55 0.07
77 30 0.04
78 30 0.04
79 58 0.07
80 31 0.04
81 10 0.01
82 6 0.01
ACGTcount: A:0.39, C:0.41, G:0.15, T:0.06
Consensus pattern (71 bp):
AACCCGAAACCCGAAACCCTGAAACCCGAAAACCCGAAACCCGAAACCCGAAACAAACCCGAAAT
ACCCGA
Found at i:6377218 original size:13 final size:13
Alignment explanation
Indices: 6377186--6377432 Score: 192
Period size: 13 Copynumber: 17.6 Consensus size: 13
6377176 ACCGAAAACT
*
6377186 CCTAAACCCTCAAC
1 CCTAAACCCT-AAA
6377200 CCTAAACCCTAAA
1 CCTAAACCCTAAA
6377213 CCTAAACCATCTAAAA
1 CCTAAACC--CT-AAA
*
6377229 CCTAAACCCGAAA
1 CCTAAACCCTAAA
*
6377242 CCCCGAAACTCCTAAA
1 --CCTAAAC-CCTAAA
*
6377258 CCGAATACCCTAAAA
1 CCTAA-ACCCT-AAA
6377273 CCCTAAACCCCGCTAAAA
1 -CCTAAA--CC-CT-AAA
6377291 CCTAAACCCTAAA
1 CCTAAACCCTAAA
*
6377304 CCCTACACCCTAAA
1 -CCTAAACCCTAAA
6377318 CCTAAA-CCTAAA
1 CCTAAACCCTAAA
*
6377330 CCTAAACCCTAAC
1 CCTAAACCCTAAA
*
6377343 CCTAAACCCTAAC
1 CCTAAACCCTAAA
*
6377356 CCTAAACCCGCATAAC
1 CCTAAA-CC-C-TAAA
* *
6377372 CCT-AACACTAAC
1 CCTAAACCCTAAA
6377384 CCTAAACCCTAAA
1 CCTAAACCCTAAA
*
6377397 CCTAAACCCCAAA
1 CCTAAACCCTAAA
6377410 CCCCTAAACCCTAAA
1 --CCTAAACCCTAAA
*
6377425 CCCAAACC
1 CCTAAACC
6377433 TCAACCCCAA
Statistics
Matches: 199, Mismatches: 14, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
12 19 0.10
13 72 0.36
14 36 0.18
15 31 0.16
16 27 0.14
17 8 0.04
18 6 0.03
ACGTcount: A:0.42, C:0.43, G:0.02, T:0.13
Consensus pattern (13 bp):
CCTAAACCCTAAA
Found at i:6377255 original size:23 final size:23
Alignment explanation
Indices: 6377225--6377282 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
6377215 TAAACCATCT
6377225 AAAA-CCTAAACCCGAA-ACCCC
1 AAAACCCTAAACCCGAATACCCC
* *
6377246 GAAACTCCTAAA-CCGAATACCCT
1 AAAAC-CCTAAACCCGAATACCCC
6377269 AAAACCCTAAACCC
1 AAAACCCTAAACCC
6377283 CGCTAAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 16 0.53
ACGTcount: A:0.45, C:0.40, G:0.05, T:0.10
Consensus pattern (23 bp):
AAAACCCTAAACCCGAATACCCC
Found at i:6377295 original size:7 final size:7
Alignment explanation
Indices: 6377112--6377445 Score: 244
Period size: 7 Copynumber: 47.4 Consensus size: 7
6377102 GAAACCCGAC
*
6377112 ACCCGAA
1 ACCCTAA
*
6377119 ACCCGAA
1 ACCCTAA
*
6377126 ACCCGAA
1 ACCCTAA
6377133 ACCCTAAA
1 ACCCT-AA
**
6377141 ACCGGAA
1 ACCCTAA
*
6377148 ACCCGAA
1 ACCCTAA
*
6377155 TACCCTAC
1 -ACCCTAA
*
6377163 ACCC-GA
1 ACCCTAA
6377169 ACCCTAA
1 ACCCTAA
**
6377176 ACCGAAA
1 ACCCTAA
6377183 ACTCCTAA
1 AC-CCTAA
*
6377191 ACCCTCA
1 ACCCTAA
6377198 ACCCTAA
1 ACCCTAA
6377205 ACCCTAA
1 ACCCTAA
6377212 A-CCTAA
1 ACCCTAA
6377218 ACCATCTAA
1 ACC--CTAA
*
6377227 AACCTAA
1 ACCCTAA
*
6377234 ACCCGAA
1 ACCCTAA
*
6377241 ACCCCGAA
1 A-CCCTAA
6377249 ACTCCTAA
1 AC-CCTAA
*
6377257 A-CCGAA
1 ACCCTAA
6377263 TACCCTAAA
1 -ACCCT-AA
6377272 ACCCTAA
1 ACCCTAA
6377279 ACCCCGCTAA
1 A--CC-CTAA
*
6377289 AACCTAA
1 ACCCTAA
6377296 ACCCTAA
1 ACCCTAA
*
6377303 ACCCTAC
1 ACCCTAA
6377310 ACCCTAA
1 ACCCTAA
6377317 A-CCTAA
1 ACCCTAA
6377323 A-CCTAA
1 ACCCTAA
6377329 A-CCTAA
1 ACCCTAA
6377335 ACCCT-A
1 ACCCTAA
6377341 ACCCTAA
1 ACCCTAA
6377348 ACCCT-A
1 ACCCTAA
6377354 ACCCTAA
1 ACCCTAA
*
6377361 ACCCGCATA
1 ACCC-TA-A
6377370 ACCCT-A
1 ACCCTAA
*
6377376 ACACT-A
1 ACCCTAA
6377382 ACCCTAA
1 ACCCTAA
6377389 ACCCTAA
1 ACCCTAA
6377396 A-CCTAA
1 ACCCTAA
*
6377402 ACCCCAA
1 ACCCTAA
6377409 ACCCCTAA
1 A-CCCTAA
6377417 ACCCTAA
1 ACCCTAA
6377424 ACCC-AA
1 ACCCTAA
*
6377430 A-CCTCA
1 ACCCTAA
*
6377436 ACCCCAA
1 ACCCTAA
6377443 ACC
1 ACC
6377446 TCCAGACCCC
Statistics
Matches: 268, Mismatches: 34, Indels: 50
0.76 0.10 0.14
Matches are distributed among these distances:
5 2 0.01
6 65 0.24
7 139 0.52
8 42 0.16
9 15 0.06
10 5 0.02
ACGTcount: A:0.42, C:0.43, G:0.04, T:0.12
Consensus pattern (7 bp):
ACCCTAA
Found at i:6377323 original size:6 final size:6
Alignment explanation
Indices: 6377288--6377438 Score: 88
Period size: 6 Copynumber: 22.8 Consensus size: 6
6377278 AACCCCGCTA
*
6377288 AAACCT AAACCCT AAACCCT ACACCCT AAACCT AAACCT AAACCT AAACCCT
1 AAACCT AAA-CCT AAA-CCT A-AACCT AAACCT AAACCT AAACCT AAA-CCT
* * * *
6377340 AACCCT AAACCCT AACCCT AAACCCGCAT AACCCT -AACACT AACCCT
1 AAACCT AAA-CCT AAACCT AAA--C-C-T AAACCT AAAC-CT AAACCT
* * *
6377387 AAACCCT AAACCT AAACCCC AAACCCCT AAACCCT AAACCC AAACCT CAACC
1 AAA-CCT AAACCT AAA-CCT AAA--CCT AAA-CCT AAACCT AAACCT AAACC
6377439 CCAAACCTCC
Statistics
Matches: 117, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
5 2 0.02
6 56 0.48
7 46 0.39
8 9 0.08
9 1 0.01
10 3 0.03
ACGTcount: A:0.42, C:0.44, G:0.01, T:0.13
Consensus pattern (6 bp):
AAACCT
Found at i:6377498 original size:7 final size:7
Alignment explanation
Indices: 6377436--6378193 Score: 505
Period size: 7 Copynumber: 105.6 Consensus size: 7
6377426 CCAAACCTCA
*
6377436 ACCCCAA
1 ACCCCAG
6377443 ACCTCCAG
1 ACC-CCAG
6377451 ACCCCCGAG
1 A-CCCC-AG
6377460 A-CCCAG
1 ACCCCAG
*
6377466 ACCCCCG
1 ACCCCAG
6377473 A-CCCAG
1 ACCCCAG
6377479 A-CCCAG
1 ACCCCAG
6377485 A-CCCAG
1 ACCCCAG
6377491 ACCCCAG
1 ACCCCAG
6377498 A-CCCAG
1 ACCCCAG
6377504 ACCCCAG
1 ACCCCAG
*
6377511 CCCCCAG
1 ACCCCAG
*
6377518 ACCCCCG
1 ACCCCAG
6377525 ACCCCAG
1 ACCCCAG
6377532 ACCCC-G
1 ACCCCAG
6377538 ACCCCAG
1 ACCCCAG
6377545 ACCCCAG
1 ACCCCAG
6377552 A-CCCAG
1 ACCCCAG
6377558 ACCCCAAG
1 ACCCC-AG
6377566 ACCCCAG
1 ACCCCAG
6377573 ACCCCCAG
1 A-CCCCAG
6377581 ACCCCAG
1 ACCCCAG
6377588 ACCCCATAG
1 ACCCC--AG
6377597 ACCCCAG
1 ACCCCAG
6377604 ACCCCAG
1 ACCCCAG
6377611 ACCCCAG
1 ACCCCAG
6377618 ACCCCAG
1 ACCCCAG
6377625 A-CCCAG
1 ACCCCAG
6377631 ACCCCACAG
1 A-CCC-CAG
6377640 ACCCCAGG
1 ACCCCA-G
6377648 A-CCCAGG
1 ACCCCA-G
6377655 ACCCCA-
1 ACCCCAG
6377661 ACCCCAG
1 ACCCCAG
6377668 ACCCCAGG
1 ACCCCA-G
6377676 ACCCCATG
1 ACCCCA-G
*
6377684 -CCCCGG
1 ACCCCAG
6377690 ACCCCAG
1 ACCCCAG
6377697 ACCCCAG
1 ACCCCAG
6377704 ACCCCAGG
1 ACCCCA-G
6377712 ACCCCAG
1 ACCCCAG
6377719 ACCCCAG
1 ACCCCAG
6377726 ACCCCAG
1 ACCCCAG
6377733 ACCCCCAGG
1 A-CCCCA-G
*
6377742 ACCACCCG
1 ACC-CCAG
6377750 AACCCCAG
1 -ACCCCAG
6377758 ACCCCAG
1 ACCCCAG
6377765 A-CCCAG
1 ACCCCAG
*
6377771 ACCCCCG
1 ACCCCAG
6377778 TACCCCAG
1 -ACCCCAG
6377786 ACCCCA-
1 ACCCCAG
6377792 ACCCCCCATG
1 A--CCCCA-G
6377802 A-CCCAG
1 ACCCCAG
6377808 ACCCCA-
1 ACCCCAG
* *
6377814 A-ACCAA
1 ACCCCAG
*
6377820 ACCCCAA
1 ACCCCAG
*
6377827 ACCCCCAA
1 A-CCCCAG
*
6377835 ACCCCAA
1 ACCCCAG
*
6377842 ACCCCAAA
1 ACCCC-AG
*
6377850 ACCCTA-
1 ACCCCAG
*
6377856 ACTCCCAA
1 AC-CCCAG
6377864 ACCCCA-
1 ACCCCAG
6377870 ACCCCA-
1 ACCCCAG
*
6377876 ACCCCAAAA
1 ACCCC--AG
6377885 ACCCCA-
1 ACCCCAG
* * *
6377891 AACCTAA
1 ACCCCAG
* *
6377898 ACCCTAA
1 ACCCCAG
* *
6377905 ACCCGAT
1 ACCCCAG
6377912 ACCCC-G
1 ACCCCAG
*
6377918 AACCTC-G
1 -ACCCCAG
*
6377925 AACCC-G
1 ACCCCAG
*
6377931 CACCCCGAA
1 -ACCCC-AG
*
6377940 ACCCCCGAA
1 A-CCCC-AG
*
6377949 ACCCCCG
1 ACCCCAG
6377956 AACCCC-G
1 -ACCCCAG
6377963 AACCCC-G
1 -ACCCCAG
*
6377970 AACCCCACT
1 -ACCCCA-G
*
6377979 ACCCCAA
1 ACCCCAG
*
6377986 ACCCCTAA
1 ACCCC-AG
*
6377994 ACCCCAA
1 ACCCCAG
*
6378001 ACCCCAA
1 ACCCCAG
*
6378008 ACCCCAAAC
1 ACCCC--AG
*
6378017 ACCCCAA
1 ACCCCAG
6378024 ACCCCA-
1 ACCCCAG
6378030 ACCCCAG
1 ACCCCAG
6378037 ACCCCAGG
1 ACCCCA-G
6378045 ACCCCAG
1 ACCCCAG
6378052 ACCCCCAG
1 A-CCCCAG
*
6378060 ACCCTAG
1 ACCCCAG
6378067 AACCCCAG
1 -ACCCCAG
6378075 ACCCC-G
1 ACCCCAG
*
6378081 ACCCAAG
1 ACCCCAG
6378088 ACCCCATG
1 ACCCCA-G
6378096 ACCCCAG
1 ACCCCAG
6378103 ACCCCCAGG
1 A-CCCCA-G
6378112 ACCCCAGGG
1 ACCCCA--G
6378121 ACCCCAG
1 ACCCCAG
6378128 ACCCCAG
1 ACCCCAG
6378135 ACCCCAG
1 ACCCCAG
6378142 A-CCCAG
1 ACCCCAG
6378148 A-CCCAG
1 ACCCCAG
6378154 ACCCCAGG
1 ACCCCA-G
6378162 A-CCCAG
1 ACCCCAG
*
6378168 ACCCCAT
1 ACCCCAG
*
6378175 ACCCCCAA
1 A-CCCCAG
*
6378183 ACCCCAA
1 ACCCCAG
6378190 ACCC
1 ACCC
6378194 AAACTCCCAT
Statistics
Matches: 643, Mismatches: 42, Indels: 132
0.79 0.05 0.16
Matches are distributed among these distances:
5 3 0.00
6 108 0.17
7 327 0.51
8 152 0.24
9 52 0.08
10 1 0.00
ACGTcount: A:0.31, C:0.55, G:0.12, T:0.02
Consensus pattern (7 bp):
ACCCCAG
Found at i:6377529 original size:21 final size:21
Alignment explanation
Indices: 6377436--6378193 Score: 505
Period size: 22 Copynumber: 35.2 Consensus size: 21
6377426 CCAAACCTCA
*
6377436 ACCCCAAACCTCCAGACCCCCGAG
1 ACCCCAGACC-CCAGA-CCCC-AG
*
6377460 A-CCCAGACCCCCGA-CCCAG
1 ACCCCAGACCCCAGACCCCAG
6377479 A-CCCAGA-CCCAGACCCCAG
1 ACCCCAGACCCCAGACCCCAG
*
6377498 A-CCCAGACCCCAGCCCCCAG
1 ACCCCAGACCCCAGACCCCAG
*
6377518 ACCCCCGACCCCAGACCCC-G
1 ACCCCAGACCCCAGACCCCAG
6377538 ACCCCAGACCCCAGA-CCCAG
1 ACCCCAGACCCCAGACCCCAG
6377558 ACCCCAAGACCCCAGACCCCCAG
1 ACCCC-AGACCCCAGA-CCCCAG
6377581 ACCCCAGACCCCATAGACCCCAG
1 ACCCCAGACCCC--AGACCCCAG
6377604 ACCCCAGACCCCAGACCCCAG
1 ACCCCAGACCCCAGACCCCAG
6377625 A-CCCAGACCCCACAGACCCCAGG
1 ACCCCAGA-CCC-CAGACCCCA-G
6377648 A-CCCAGGACCCCA-ACCCCAG
1 ACCCCA-GACCCCAGACCCCAG
*
6377668 ACCCCAGGACCCCATG-CCCCGG
1 ACCCCA-GACCCCA-GACCCCAG
6377690 ACCCCAGACCCCAGACCCCAGG
1 ACCCCAGACCCCAGACCCCA-G
6377712 ACCCCAGACCCCAGACCCCAG
1 ACCCCAGACCCCAGACCCCAG
*
6377733 ACCCCCAGGACCACCCGAACCCCAG
1 A-CCCCA-GACC-CCAG-ACCCCAG
*
6377758 ACCCCAGA-CCCAGACCCCCG
1 ACCCCAGACCCCAGACCCCAG
6377778 TACCCCAGACCCCA-ACCCCCCATG
1 -ACCCCAGACCCCAGA--CCCCA-G
* *
6377802 A-CCCAGACCCCA-A-ACCAA
1 ACCCCAGACCCCAGACCCCAG
* * *
6377820 ACCCCAAACCCCCAAACCCCAA
1 ACCCCAGA-CCCCAGACCCCAG
* * *
6377842 ACCCCAAAACCCTA-ACTCCCAA
1 ACCCC-AGACCCCAGAC-CCCAG
*
6377864 ACCCCA-ACCCCA-ACCCCAAAA
1 ACCCCAGACCCCAGACCCC--AG
* * * * *
6377885 ACCCCA-AACCTAAACCCTAA
1 ACCCCAGACCCCAGACCCCAG
* * *
6377905 ACCCGATACCCC-GAACCTC-G
1 ACCCCAGACCCCAG-ACCCCAG
* * *
6377925 AACCC-GCACCCCGAAACCCCCGAA
1 ACCCCAG-ACCCC-AGA-CCCC-AG
*
6377949 ACCCCCGAACCCC-GAACCCC-G
1 ACCCCAG-ACCCCAG-ACCCCAG
* * *
6377970 AACCCCACTACCCCAAACCCCTAA
1 -ACCCCA-GACCCCAGACCCC-AG
* * *
6377994 ACCCCAAACCCCAAACCCCAAAC
1 ACCCCAGACCCCAGACCCC--AG
*
6378017 ACCCCAAACCCCA-ACCCCAG
1 ACCCCAGACCCCAGACCCCAG
6378037 ACCCCAGGACCCCAGACCCCCAG
1 ACCCCA-GACCCCAGA-CCCCAG
*
6378060 ACCCTAGAACCCCAGACCCC-G
1 ACCCCAG-ACCCCAGACCCCAG
*
6378081 ACCCAAGACCCCATGACCCCAG
1 ACCCCAGACCCCA-GACCCCAG
6378103 ACCCCCAGGACCCCAGGGACCCCAG
1 A-CCCCA-GACCCCA--GACCCCAG
6378128 ACCCCAGACCCCAGA-CCCAG
1 ACCCCAGACCCCAGACCCCAG
6378148 A-CCCAGACCCCAGGA-CCCAG
1 ACCCCAGACCCCA-GACCCCAG
* * *
6378168 ACCCCATACCCCCAAACCCCAA
1 ACCCCAGA-CCCCAGACCCCAG
6378190 ACCC
1 ACCC
6378194 AAACTCCCAT
Statistics
Matches: 614, Mismatches: 55, Indels: 132
0.77 0.07 0.16
Matches are distributed among these distances:
18 6 0.01
19 46 0.07
20 105 0.17
21 131 0.21
22 159 0.26
23 112 0.18
24 32 0.05
25 23 0.04
ACGTcount: A:0.31, C:0.55, G:0.12, T:0.02
Consensus pattern (21 bp):
ACCCCAGACCCCAGACCCCAG
Found at i:6377786 original size:15 final size:14
Alignment explanation
Indices: 6377436--6378193 Score: 505
Period size: 15 Copynumber: 52.8 Consensus size: 14
6377426 CCAAACCTCA
*
6377436 ACCCCAAACCTCCAG
1 ACCCCAGACC-CCAG
6377451 ACCCCCGAGA-CCCAG
1 A-CCCC-AGACCCCAG
*
6377466 ACCCCCGA-CCCAG
1 ACCCCAGACCCCAG
6377479 A-CCCAGA-CCCAG
1 ACCCCAGACCCCAG
6377491 ACCCCAGA-CCCAG
1 ACCCCAGACCCCAG
*
6377504 ACCCCAGCCCCCAG
1 ACCCCAGACCCCAG
*
6377518 ACCCCCGACCCCAG
1 ACCCCAGACCCCAG
6377532 ACCCC-GACCCCAG
1 ACCCCAGACCCCAG
6377545 ACCCCAGA-CCCAG
1 ACCCCAGACCCCAG
6377558 ACCCCAAGACCCCAG
1 ACCCC-AGACCCCAG
6377573 ACCCCCAGACCCCAG
1 A-CCCCAGACCCCAG
6377588 ACCCCATAGACCCCAG
1 ACCCC--AGACCCCAG
6377604 ACCCCAGACCCCAG
1 ACCCCAGACCCCAG
6377618 ACCCCAGA-CCCAG
1 ACCCCAGACCCCAG
6377631 ACCCCACAGACCCCAGG
1 A-CCC-CAGACCCCA-G
6377648 A-CCCAGGACCCCA-
1 ACCCCA-GACCCCAG
6377661 ACCCCAGACCCCAGG
1 ACCCCAGACCCCA-G
*
6377676 ACCCCATG-CCCCGG
1 ACCCCA-GACCCCAG
6377690 ACCCCAGACCCCAG
1 ACCCCAGACCCCAG
6377704 ACCCCAGGACCCCAG
1 ACCCCA-GACCCCAG
6377719 ACCCCAGACCCCAG
1 ACCCCAGACCCCAG
*
6377733 ACCCCCAGGACCACCCG
1 A-CCCCA-GACC-CCAG
6377750 AACCCCAGACCCCAG
1 -ACCCCAGACCCCAG
*
6377765 A-CCCAGACCCCCG
1 ACCCCAGACCCCAG
6377778 TACCCCAGACCCCA-
1 -ACCCCAGACCCCAG
6377792 ACCCCCCATGA-CCCAG
1 A--CCCCA-GACCCCAG
* *
6377808 ACCCCA-A-ACCAA
1 ACCCCAGACCCCAG
* *
6377820 ACCCCAAACCCCCAA
1 ACCCCAGA-CCCCAG
* *
6377835 ACCCCAAACCCCAAA
1 ACCCCAGACCCC-AG
* *
6377850 ACCCTA-ACTCCCAA
1 ACCCCAGAC-CCCAG
6377864 ACCCCA-ACCCCA-
1 ACCCCAGACCCCAG
*
6377876 ACCCCAAAAACCCCA-
1 ACCCC--AGACCCCAG
* * * * *
6377891 AACCTAAACCCTAA
1 ACCCCAGACCCCAG
* *
6377905 ACCCGATACCCC-G
1 ACCCCAGACCCCAG
* *
6377918 AACCTC-GAACCC-G
1 -ACCCCAGACCCCAG
* *
6377931 CACCCCGAAACCCCCGAA
1 -ACCCC-AGA-CCCC-AG
*
6377949 ACCCCCGAACCCC-G
1 ACCCCAG-ACCCCAG
*
6377963 AACCCC-GAACCCCACT
1 -ACCCCAG-ACCCCA-G
* *
6377979 ACCCCAAACCCCTAA
1 ACCCCAGACCCC-AG
* *
6377994 ACCCCAAACCCCAA
1 ACCCCAGACCCCAG
* *
6378008 ACCCCAAACACCCCAA
1 ACCCC--AGACCCCAG
6378024 ACCCCA-ACCCCAG
1 ACCCCAGACCCCAG
6378037 ACCCCAGGACCCCAG
1 ACCCCA-GACCCCAG
*
6378052 ACCCCCAGACCCTAG
1 A-CCCCAGACCCCAG
6378067 AACCCCAGACCCC-G
1 -ACCCCAGACCCCAG
*
6378081 ACCCAAGACCCCATG
1 ACCCCAGACCCCA-G
6378096 ACCCCAGACCCCCAGG
1 ACCCCAGA-CCCCA-G
6378112 ACCCCAGGGACCCCAG
1 ACCCCA--GACCCCAG
6378128 ACCCCAGACCCCAG
1 ACCCCAGACCCCAG
6378142 A-CCCAGA-CCCAG
1 ACCCCAGACCCCAG
6378154 ACCCCAGGA-CCCAG
1 ACCCCA-GACCCCAG
* *
6378168 ACCCCATACCCCCAA
1 ACCCCAGA-CCCCAG
*
6378183 ACCCCAAACCC
1 ACCCCAGACCC
6378194 AAACTCCCAT
Statistics
Matches: 626, Mismatches: 50, Indels: 135
0.77 0.06 0.17
Matches are distributed among these distances:
12 32 0.05
13 131 0.21
14 163 0.26
15 189 0.30
16 85 0.14
17 23 0.04
18 3 0.00
ACGTcount: A:0.31, C:0.55, G:0.12, T:0.02
Consensus pattern (14 bp):
ACCCCAGACCCCAG
Found at i:6377947 original size:9 final size:9
Alignment explanation
Indices: 6377933--6377961 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6377923 CGAACCCGCA
6377933 CCCCGAAAC
1 CCCCGAAAC
6377942 CCCCGAAAC
1 CCCCGAAAC
6377951 CCCCG-AAC
1 CCCCGAAAC
6377959 CCC
1 CCC
6377962 GAACCCCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.28, C:0.62, G:0.10, T:0.00
Consensus pattern (9 bp):
CCCCGAAAC
Found at i:6378207 original size:14 final size:13
Alignment explanation
Indices: 6378178--6378299 Score: 66
Period size: 14 Copynumber: 8.8 Consensus size: 13
6378168 ACCCCATACC
6378178 CCCAAACCCCAAA
1 CCCAAACCCCAAA
*
6378191 CCCAAACTCCCATACCC
1 CCCAAAC-CCCA-A--A
6378208 CCCAATACCCCTAAA
1 CCCAA-ACCCC-AAA
6378223 CCCAAAGCCCCAAA
1 CCCAAA-CCCCAAA
*
6378237 CCCCTAACCCCAAA
1 -CCCAAACCCCAAA
* *
6378251 CCCCAAACTCCAGA
1 -CCCAAACCCCAAA
** *
6378265 CCCGTACCCTAAA
1 CCCAAACCCCAAA
* *
6378278 -CCGAACCCCGAA
1 CCCAAACCCCAAA
*
6378290 CCCGAACCCC
1 CCCAAACCCC
6378300 GCGAACGAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
12 9 0.10
13 24 0.28
14 26 0.30
15 15 0.17
17 9 0.10
18 3 0.03
ACGTcount: A:0.35, C:0.53, G:0.05, T:0.07
Consensus pattern (13 bp):
CCCAAACCCCAAA
Found at i:6378245 original size:7 final size:7
Alignment explanation
Indices: 6377381--6378258 Score: 259
Period size: 7 Copynumber: 122.4 Consensus size: 7
6377371 CCCTAACACT
*
6377381 AACCCTA
1 AACCCCA
*
6377388 AACCCTA
1 AACCCCA
*
6377395 AA-CCTA
1 AACCCCA
6377401 AACCCCA
1 AACCCCA
6377408 AACCCCTA
1 AACCCC-A
*
6377416 AACCCTA
1 AACCCCA
6377423 AA-CCCA
1 AACCCCA
*
6377429 AACCTC-
1 AACCCCA
6377435 AACCCCA
1 AACCCCA
6377442 AACCTCCA
1 AACC-CCA
*
6377450 GACCCCCGA
1 -AACCCC-A
*
6377459 GA-CCCA
1 AACCCCA
* *
6377465 GACCCCC
1 AACCCCA
*
6377472 GA-CCCA
1 AACCCCA
*
6377478 GA-CCCA
1 AACCCCA
*
6377484 GA-CCCA
1 AACCCCA
*
6377490 GACCCCA
1 AACCCCA
*
6377497 GA-CCCA
1 AACCCCA
*
6377503 GACCCCA
1 AACCCCA
**
6377510 GCCCCCA
1 AACCCCA
* *
6377517 GACCCCC
1 AACCCCA
*
6377524 GACCCCA
1 AACCCCA
*
6377531 GACCCC-
1 AACCCCA
*
6377537 GACCCCA
1 AACCCCA
*
6377544 GACCCCA
1 AACCCCA
*
6377551 GA-CCCA
1 AACCCCA
*
6377557 GACCCCA
1 AACCCCA
6377564 AGACCCCA
1 A-ACCCCA
*
6377572 GACCCCCA
1 -AACCCCA
*
6377580 GACCCCA
1 AACCCCA
*
6377587 GACCCCA
1 AACCCCA
6377594 TAGACCCCA
1 -A-ACCCCA
*
6377603 GACCCCA
1 AACCCCA
*
6377610 GACCCCA
1 AACCCCA
*
6377617 GACCCCA
1 AACCCCA
*
6377624 GA-CCCA
1 AACCCCA
*
6377630 GACCCCA
1 AACCCCA
6377637 CAGACCCCA
1 -A-ACCCCA
*
6377646 GGA-CCCA
1 -AACCCCA
*
6377653 GGACCCC-
1 -AACCCCA
6377660 AACCCCA
1 AACCCCA
*
6377667 GACCCCA
1 AACCCCA
*
6377674 GGACCCCA
1 -AACCCCA
** *
6377682 TGCCCCG
1 AACCCCA
*
6377689 GACCCCA
1 AACCCCA
*
6377696 GACCCCA
1 AACCCCA
*
6377703 GACCCCA
1 AACCCCA
*
6377710 GGACCCCA
1 -AACCCCA
*
6377718 GACCCCA
1 AACCCCA
*
6377725 GACCCCA
1 AACCCCA
*
6377732 GACCCCCA
1 -AACCCCA
* *
6377740 GGACCACCCG
1 --AAC-CCCA
6377750 AACCCCA
1 AACCCCA
*
6377757 GACCCCA
1 AACCCCA
*
6377764 GA-CCCA
1 AACCCCA
* *
6377770 GACCCCCG
1 -AACCCCA
*
6377778 TACCCCA
1 AACCCCA
*
6377785 GACCCCA
1 AACCCCA
*
6377792 ACCCCCCA
1 A-ACCCCA
*
6377800 TGA-CCCA
1 -AACCCCA
*
6377807 GACCCCA
1 AACCCCA
6377814 AA--CCA
1 AACCCCA
6377819 AACCCCA
1 AACCCCA
6377826 AACCCCCA
1 AA-CCCCA
6377834 AACCCCA
1 AACCCCA
6377841 AACCCCA
1 AACCCCA
* *
6377848 AAACCCT
1 AACCCCA
6377855 AACTCCCA
1 AAC-CCCA
6377863 AACCCC-
1 AACCCCA
6377869 AACCCC-
1 AACCCCA
6377875 AACCCCAAA
1 AACCCC--A
6377884 AACCCCA
1 AACCCCA
*
6377891 AA-CCTA
1 AACCCCA
*
6377897 AACCCTA
1 AACCCCA
*
6377904 AACCCGA
1 AACCCCA
* *
6377911 TACCCCG
1 AACCCCA
* *
6377918 AACCTCG
1 AACCCCA
6377925 AACCCGC-
1 AACCC-CA
6377932 -ACCCCGA
1 AACCCC-A
6377939 AACCCCCGA
1 AA-CCCC-A
*
6377948 AACCCCCG
1 AA-CCCCA
*
6377956 AACCCCG
1 AACCCCA
*
6377963 AACCCCG
1 AACCCCA
6377970 AACCCCA
1 AACCCCA
*
6377977 CTACCCCA
1 -AACCCCA
6377985 AACCCCTA
1 AACCCC-A
6377993 AACCCCA
1 AACCCCA
6378000 AACCCCA
1 AACCCCA
6378007 AACCCCAA
1 AACCCC-A
6378015 ACACCCCA
1 A-ACCCCA
6378023 AACCCC-
1 AACCCCA
6378029 AACCCCA
1 AACCCCA
*
6378036 GACCCCA
1 AACCCCA
*
6378043 GGACCCCA
1 -AACCCCA
*
6378051 GACCCCCA
1 -AACCCCA
* *
6378059 GACCCTA
1 AACCCCA
6378066 GAACCCCA
1 -AACCCCA
*
6378074 GACCCC-
1 AACCCCA
*
6378080 GA-CCCA
1 AACCCCA
6378086 AGACCCCA
1 A-ACCCCA
*
6378094 TGACCCCA
1 -AACCCCA
*
6378102 GACCCCCA
1 -AACCCCA
*
6378110 GGACCCCA
1 -AACCCCA
*
6378118 GGGACCCCA
1 --AACCCCA
*
6378127 GACCCCA
1 AACCCCA
*
6378134 GACCCCA
1 AACCCCA
*
6378141 GA-CCCA
1 AACCCCA
*
6378147 GA-CCCA
1 AACCCCA
*
6378153 GACCCCA
1 AACCCCA
*
6378160 GGA-CCCA
1 -AACCCCA
*
6378167 GACCCCA
1 AACCCCA
*
6378174 TACCCCCA
1 -AACCCCA
6378182 AACCCCA
1 AACCCCA
6378189 AA-CCCA
1 AACCCCA
6378195 AACTCCCA
1 AAC-CCCA
*
6378203 TACCCCCCA
1 -A-ACCCCA
6378212 ATACCCCTA
1 A-ACCCC-A
6378221 AA-CCCA
1 AACCCCA
6378227 AAGCCCCA
1 AA-CCCCA
*
6378235 AACCCCT
1 AACCCCA
6378242 AACCCCA
1 AACCCCA
6378249 AACCCCA
1 AACCCCA
6378256 AAC
1 AAC
6378259 TCCAGACCCG
Statistics
Matches: 715, Mismatches: 89, Indels: 134
0.76 0.09 0.14
Matches are distributed among these distances:
5 9 0.01
6 123 0.17
7 368 0.51
8 151 0.21
9 60 0.08
10 4 0.01
ACGTcount: A:0.32, C:0.54, G:0.10, T:0.03
Consensus pattern (7 bp):
AACCCCA
Found at i:6378290 original size:7 final size:7
Alignment explanation
Indices: 6378278--6378362 Score: 81
Period size: 7 Copynumber: 12.3 Consensus size: 7
6378268 GTACCCTAAA
6378278 CCGAACC
1 CCGAACC
6378285 CCGAA-C
1 CCGAACC
6378291 CCGAACCC
1 CCGAA-CC
6378299 CGCGAA--
1 C-CGAACC
*
6378305 -CGAAAC
1 CCGAACC
6378311 CCGAAGCC
1 CCGAA-CC
6378319 CCGAACC
1 CCGAACC
6378326 CCGAACC
1 CCGAACC
6378333 CCG-ACC
1 CCGAACC
6378339 CCGAACC
1 CCGAACC
6378346 CCTGAACC
1 CC-GAACC
*
6378354 CCCAACC
1 CCGAACC
6378361 CC
1 CC
6378363 CCCCCCCACC
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
4 4 0.06
6 12 0.18
7 32 0.48
8 15 0.22
9 4 0.06
ACGTcount: A:0.28, C:0.55, G:0.15, T:0.01
Consensus pattern (7 bp):
CCGAACC
Found at i:6378296 original size:13 final size:14
Alignment explanation
Indices: 6378278--6378362 Score: 81
Period size: 15 Copynumber: 6.1 Consensus size: 14
6378268 GTACCCTAAA
6378278 CCGAACCCCGAA-C
1 CCGAACCCCGAACC
6378291 CCGAACCCCGCGAA--
1 CCGAA-CCC-CGAACC
*
6378305 -CGAAACCCGAAGCC
1 CCGAACCCCGAA-CC
6378319 CCGAACCCCGAACC
1 CCGAACCCCGAACC
6378333 CCG-ACCCCGAACC
1 CCGAACCCCGAACC
*
6378346 CCTGAACCCCCAACC
1 CC-GAACCCCGAACC
6378361 CC
1 CC
6378363 CCCCCCCACC
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.07
12 2 0.03
13 21 0.34
14 9 0.15
15 25 0.41
ACGTcount: A:0.28, C:0.55, G:0.15, T:0.01
Consensus pattern (14 bp):
CCGAACCCCGAACC
Found at i:6378325 original size:14 final size:13
Alignment explanation
Indices: 6378278--6378361 Score: 66
Period size: 13 Copynumber: 6.2 Consensus size: 13
6378268 GTACCCTAAA
6378278 CCGAACCCCGAAC
1 CCGAACCCCGAAC
6378291 CCGAACCCCGCGAA-
1 CCGAA-CCC-CGAAC
*
6378305 -CGAAACCCGAAGCC
1 CCGAACCCCGAA--C
6378319 CCGAACCCCGAACC
1 CCGAACCCCGAA-C
6378333 CCG-ACCCCGAACC
1 CCGAACCCCGAA-C
*
6378346 CCTGAACCCCCAAC
1 CC-GAACCCCGAAC
6378360 CC
1 CC
6378362 CCCCCCCCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
11 4 0.07
12 2 0.03
13 21 0.35
14 12 0.20
15 21 0.35
ACGTcount: A:0.29, C:0.55, G:0.15, T:0.01
Consensus pattern (13 bp):
CCGAACCCCGAAC
Found at i:6378342 original size:20 final size:21
Alignment explanation
Indices: 6378317--6378355 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
6378307 AAACCCGAAG
6378317 CCCCGAACCCC-GAACCCCGA
1 CCCCGAACCCCTGAACCCCGA
6378337 CCCCGAACCCCTGAACCCC
1 CCCCGAACCCCTGAACCCC
6378356 CAACCCCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.23, C:0.62, G:0.13, T:0.03
Consensus pattern (21 bp):
CCCCGAACCCCTGAACCCCGA
Found at i:6378368 original size:28 final size:28
Alignment explanation
Indices: 6378310--6378368 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6378300 GCGAACGAAA
* *
6378310 CCCGAAGCCCCGAACCCCGAACCCCGAC
1 CCCGAAGCCCCGAACCCCCAACCCCCAC
*
6378338 CCCGAA-CCCCTGAACCCCCAACCCCCCC
1 CCCGAAGCCCC-GAACCCCCAACCCCCAC
6378366 CCC
1 CCC
6378369 CACCCCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.22, C:0.64, G:0.12, T:0.02
Consensus pattern (28 bp):
CCCGAAGCCCCGAACCCCCAACCCCCAC
Found at i:6378375 original size:28 final size:28
Alignment explanation
Indices: 6378317--6378389 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
6378307 AAACCCGAAG
* * *
6378317 CCCC-GAACCCCGAACCCCGACCCCGAA
1 CCCCTGAACCCCAAACCCCCACCCCCAA
* * *
6378344 CCCCTGAACCCCCAACCCCCCCCCCCAC
1 CCCCTGAACCCCAAACCCCCACCCCCAA
6378372 CCCCAT-AACCCCAAACCC
1 CCCC-TGAACCCCAAACCC
6378390 AAACCCAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 4 0.11
28 33 0.87
29 1 0.03
ACGTcount: A:0.25, C:0.66, G:0.07, T:0.03
Consensus pattern (28 bp):
CCCCTGAACCCCAAACCCCCACCCCCAA
Found at i:6378427 original size:16 final size:16
Alignment explanation
Indices: 6378403--6378436 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6378393 CCCAAACCTG
6378403 AACCCTGAACCCTTAA
1 AACCCTGAACCCTTAA
*
6378419 AACCTTGAACCCTTAA
1 AACCCTGAACCCTTAA
6378435 AA
1 AA
6378437 GACCCGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (16 bp):
AACCCTGAACCCTTAA
Found at i:6378480 original size:7 final size:7
Alignment explanation
Indices: 6378452--6378642 Score: 138
Period size: 7 Copynumber: 28.4 Consensus size: 7
6378442 GAACCTGACC
6378452 CCCG-AA
1 CCCGAAA
6378458 CCC-AAA
1 CCCGAAA
6378464 CCCG-AA
1 CCCGAAA
6378470 CCCGAAA
1 CCCGAAA
6378477 CCCGAAA
1 CCCGAAA
6378484 CCCGGAAA
1 CCC-GAAA
6378492 CCCGAAA
1 CCCGAAA
6378499 CCCG-AA
1 CCCGAAA
6378505 -CCG-AA
1 CCCGAAA
*
6378510 CCCGAAC
1 CCCGAAA
6378517 CCCG-AA
1 CCCGAAA
*
6378523 CCCGAAC
1 CCCGAAA
6378530 CCCG-AA
1 CCCGAAA
*
6378536 CCCCAAA
1 CCCGAAA
*
6378543 CCTCGAAC
1 CC-CGAAA
6378551 CCCG-AA
1 CCCGAAA
6378557 CCTCG-AA
1 CC-CGAAA
*
6378564 CCTCGAAC
1 CC-CGAAA
*
6378572 CCCGAAC
1 CCCGAAA
*
6378579 CCCGAAC
1 CCCGAAA
*
6378586 CCCGAAC
1 CCCGAAA
6378593 CCCG-AA
1 CCCGAAA
*
6378599 CCCCAAA
1 CCCGAAA
*
6378606 CCTCGAAC
1 CC-CGAAA
*
6378614 CCCGAAC
1 CCCGAAA
*
6378621 CCCG-AC
1 CCCGAAA
6378627 CCCG-AA
1 CCCGAAA
6378633 CCCGAAA
1 CCCGAAA
6378640 CCC
1 CCC
6378643 TACGAACCCT
Statistics
Matches: 157, Mismatches: 14, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.03
6 46 0.29
7 86 0.55
8 20 0.13
ACGTcount: A:0.33, C:0.51, G:0.14, T:0.02
Consensus pattern (7 bp):
CCCGAAA
Found at i:6378485 original size:14 final size:13
Alignment explanation
Indices: 6378438--6378642 Score: 168
Period size: 14 Copynumber: 15.3 Consensus size: 13
6378428 CCCTTAAAAG
* *
6378438 ACCCGAACCTGAC
1 ACCCGAACCCGAA
*
6378451 CCCCGAACCC-AA
1 ACCCGAACCCGAA
6378463 ACCCGAACCCGAA
1 ACCCGAACCCGAA
6378476 ACCCGAAACCCGGAA
1 ACCCG-AACCC-GAA
6378491 ACCCGAAACCCG-A
1 ACCCG-AACCCGAA
6378504 A-CCGAACCCGAA
1 ACCCGAACCCGAA
*
6378516 CCCCGAACCCGAA
1 ACCCGAACCCGAA
* *
6378529 CCCCGAACCCCAA
1 ACCCGAACCCGAA
6378542 ACCTCGAACCCCG-A
1 ACC-CGAA-CCCGAA
6378556 ACCTCGAACCTCGAA
1 ACC-CGAACC-CGAA
*
6378571 CCCCGAACCCCGAA
1 ACCCGAA-CCCGAA
*
6378585 CCCCGAACCCCGAA
1 ACCCGAA-CCCGAA
* *
6378599 CCCCAAACCTCGAA
1 ACCCGAACC-CGAA
*
6378613 CCCCGAACCCCG-A
1 ACCCGAA-CCCGAA
*
6378626 CCCCGAACCCGAA
1 ACCCGAACCCGAA
6378639 ACCC
1 ACCC
6378643 TACGAACCCT
Statistics
Matches: 167, Mismatches: 12, Indels: 26
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.04
12 18 0.11
13 58 0.35
14 61 0.37
15 24 0.14
ACGTcount: A:0.33, C:0.51, G:0.14, T:0.02
Consensus pattern (13 bp):
ACCCGAACCCGAA
Found at i:6378493 original size:15 final size:15
Alignment explanation
Indices: 6378461--6378502 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
6378451 CCCCGAACCC
6378461 AAACCCG-AACCC-G
1 AAACCCGAAACCCGG
6378474 AAACCCGAAACCCGG
1 AAACCCGAAACCCGG
6378489 AAACCCGAAACCCG
1 AAACCCGAAACCCG
6378503 AACCGAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 15 0.56
ACGTcount: A:0.40, C:0.43, G:0.17, T:0.00
Consensus pattern (15 bp):
AAACCCGAAACCCGG
Found at i:6378551 original size:21 final size:20
Alignment explanation
Indices: 6378451--6378635 Score: 198
Period size: 21 Copynumber: 9.2 Consensus size: 20
6378441 CGAACCTGAC
6378451 CCCCGAA-CCCAAACCCGAA
1 CCCCGAACCCCAAACCCGAA
*
6378470 -CCCGAAACCCGAAACCCGGAA
1 CCCCG-AACCCCAAACCC-GAA
* * *
6378491 ACCCGAAACCCGAA-CCGAA
1 CCCCGAACCCCAAACCCGAA
*
6378510 -CCCGAACCCCGAACCCGAA
1 CCCCGAACCCCAAACCCGAA
6378529 CCCCGAACCCCAAACCTCGAA
1 CCCCGAACCCCAAACC-CGAA
* *
6378550 CCCCGAACCTCGAACCTCGAA
1 CCCCGAACCCCAAACC-CGAA
*
6378571 CCCCGAACCCCGAACCCCGAA
1 CCCCGAACCCC-AAACCCGAA
6378592 CCCCGAACCCCAAACCTCGAA
1 CCCCGAACCCCAAACC-CGAA
* *
6378613 CCCCGAACCCCGACCCCGAA
1 CCCCGAACCCCAAACCCGAA
6378633 CCC
1 CCC
6378636 GAAACCCTAC
Statistics
Matches: 143, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.11
19 10 0.07
20 35 0.24
21 75 0.52
22 7 0.05
ACGTcount: A:0.32, C:0.52, G:0.14, T:0.02
Consensus pattern (20 bp):
CCCCGAACCCCAAACCCGAA
Found at i:6378670 original size:7 final size:7
Alignment explanation
Indices: 6378631--6378701 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
6378621 CCCGACCCCG
*
6378631 AACCCGA
1 AACCCTA
6378638 AACCCTA
1 AACCCTA
6378645 CGAACCCT-
1 --AACCCTA
6378653 AA-CCT-
1 AACCCTA
6378658 AACCCTA
1 AACCCTA
6378665 AACCCTA
1 AACCCTA
6378672 AA-CCTCA
1 AACCCT-A
6378679 AACCCT-
1 AACCCTA
6378685 AACTCCTA
1 AAC-CCTA
*
6378693 AACCTTA
1 AACCCTA
6378700 AA
1 AA
6378702 ACTCGAACCC
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
5 5 0.09
6 11 0.20
7 26 0.48
8 6 0.11
9 6 0.11
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:6378684 original size:21 final size:20
Alignment explanation
Indices: 6378637--6378697 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
6378627 CCCGAACCCG
6378637 AAACCCTACGAACCCT-AACCT
1 AAACCCTA--AACCCTAAACCT
6378658 -AACCCTAAACCCTAAACCT
1 AAACCCTAAACCCTAAACCT
6378677 CAAACCCT-AACTCCTAAACCT
1 -AAACCCTAAAC-CCTAAACCT
6378698 TAAAACTCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
20 10 0.28
21 15 0.42
ACGTcount: A:0.39, C:0.43, G:0.02, T:0.16
Consensus pattern (20 bp):
AAACCCTAAACCCTAAACCT
Found at i:6378766 original size:7 final size:7
Alignment explanation
Indices: 6378754--6378807 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
6378744 CCTCAAACAG
6378754 TAAATCT
1 TAAATCT
6378761 TAAATCT
1 TAAATCT
*
6378768 TAAACCTT
1 TAAATC-T
*
6378776 TAAATCA
1 TAAATCT
*
6378783 TAAACCT
1 TAAATCT
*
6378790 TAAATCA
1 TAAATCT
*
6378797 TAAACCT
1 TAAATCT
6378804 TAAA
1 TAAA
6378808 CTCTGAATCT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (7 bp):
TAAATCT
Found at i:6378794 original size:14 final size:14
Alignment explanation
Indices: 6378754--6378807 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
6378744 CCTCAAACAG
* *
6378754 TAAATCTTAAATCT
1 TAAACCTTAAATCA
6378768 TAAACCTTTAAATCA
1 TAAACC-TTAAATCA
6378783 TAAACCTTAAATCA
1 TAAACCTTAAATCA
6378797 TAAACCTTAAA
1 TAAACCTTAAA
6378808 CTCTGAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 24 0.65
15 13 0.35
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACCTTAAATCA
Done.